@imix-js/taproot - npm Package Compare versions

Comparing version 0.9.4 to 0.9.5

dist/core/link-parser.d.ts

+export interface LinkFile {
+    /** Absolute path to the link.md file */
+    filePath: string;
+    /** GitHub repo URL (from **Repo:** field) */
+    repo: string;
+    /** Relative path to target spec within the source repo (from **Path:** field) */
+    path: string;
+    /** Link type: intent | behaviour | truth (from **Type:** field) */
+    type: string;
+}
+export interface ParsedLinkFile {
+    repo: string | null;
+    path: string | null;
+    type: string | null;
+}
+/**
+ * Parse a link.md file and extract Repo, Path, Type fields.
+ * Returns null values for any field not found.
+ */
+export declare function parseLinkFile(content: string): ParsedLinkFile;
+/**
+ * Find all link files (link.md or *-link.md) under a directory tree.
+ */
+export declare function findLinkFiles(rootPath: string): string[];
+/**
+ * Load .taproot/repos.yaml from the project root.
+ * Returns null if the file does not exist.
+ * Returns a map of repo URL → local absolute path.
+ */
+export declare function loadReposYaml(projectRoot: string): Map<string, string> | null;
+/**
+ * Resolve a link target to an absolute local path.
+ * Returns null if the repo URL is not mapped in repos.yaml.
+ */
+export declare function resolveLinkTarget(repo: string, targetPath: string, reposMap: Map<string, string>): string | null;

dist/core/link-parser.js

+import { readFileSync, existsSync, readdirSync, statSync } from 'fs';
+import { join, resolve } from 'path';
+import yaml from 'js-yaml';
+/** Dirs excluded from link-file scans (subset of fs-walker's DEFAULT_EXCLUDE — link files live inside specs/ and global-truths/) */
+const LINK_SCAN_EXCLUDE = new Set(['.git', 'node_modules', 'dist', '.taproot', 'agent', 'skills']);
+/**
+ * Parse a link.md file and extract Repo, Path, Type fields.
+ * Returns null values for any field not found.
+ */
+export function parseLinkFile(content) {
+    const field = (name) => {
+        const m = new RegExp(`\\*\\*${name}:\\*\\*\\s*(.+)`).exec(content);
+        return m ? m[1].trim() : null;
+    };
+    return {
+        repo: field('Repo'),
+        path: field('Path'),
+        type: field('Type'),
+    };
+}
+/**
+ * Find all link files (link.md or *-link.md) under a directory tree.
+ */
+export function findLinkFiles(rootPath) {
+    const results = [];
+    function walk(dir) {
+        let entries;
+        try {
+            entries = readdirSync(dir);
+        }
+        catch {
+            return;
+        }
+        for (const entry of entries) {
+            const fullPath = join(dir, entry);
+            try {
+                const stat = statSync(fullPath);
+                if (stat.isDirectory()) {
+                    if (!LINK_SCAN_EXCLUDE.has(entry))
+                        walk(fullPath);
+                }
+                else if (entry === 'link.md' || entry.endsWith('-link.md')) {
+                    results.push(fullPath);
+                }
+            }
+            catch {
+                // skip unreadable
+            }
+        }
+    }
+    walk(rootPath);
+    return results;
+}
+/**
+ * Load .taproot/repos.yaml from the project root.
+ * Returns null if the file does not exist.
+ * Returns a map of repo URL → local absolute path.
+ */
+export function loadReposYaml(projectRoot) {
+    const reposPath = join(projectRoot, '.taproot', 'repos.yaml');
+    if (!existsSync(reposPath))
+        return null;
+    try {
+        const content = readFileSync(reposPath, 'utf-8');
+        const raw = yaml.load(content);
+        if (typeof raw !== 'object' || raw === null || Array.isArray(raw))
+            return new Map();
+        const map = new Map();
+        for (const [url, localPath] of Object.entries(raw)) {
+            if (typeof localPath === 'string') {
+                map.set(url.trim(), resolve(projectRoot, localPath));
+            }
+        }
+        return map;
+    }
+    catch {
+        return new Map();
+    }
+}
+/**
+ * Resolve a link target to an absolute local path.
+ * Returns null if the repo URL is not mapped in repos.yaml.
+ */
+export function resolveLinkTarget(repo, targetPath, reposMap) {
+    const repoRoot = reposMap.get(repo.trim());
+    if (!repoRoot)
+        return null;
+    return join(repoRoot, targetPath);
+}
+//# sourceMappingURL=link-parser.js.map

dist/core/link-parser.js.map

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docs/cross-repo.md

+# Cross-Repo Specification
+
+When a system spans multiple repositories, requirements shouldn't live in just one of them — or worse, be duplicated in each. Taproot's cross-repo linking lets one repo own a spec while other repos implement it locally, with full traceability and independent coverage reporting on each side.
+
+---
+
+## The core idea
+
+A **link file** is a single markdown file placed in a linking repo's hierarchy that points to a spec in another repo. It says: "this repo is aware of that requirement, and here is where our implementation record lives."
+
+```
+platform-repo/
+  taproot/specs/auth/plugin-login/
+    usecase.md        ← the spec lives here
+    platform-impl/
+      impl.md         ← platform's own implementation
+
+plugin-repo/
+  taproot/specs/auth/plugin-login/
+    link.md           ← points back to platform-repo's usecase.md
+    plugin-impl/
+      impl.md         ← plugin's local implementation (lists link.md in Source Files)
+```
+
+The spec is defined once. Each repo has its own implementation record. Each repo's `taproot coverage` runs independently and stays clean.
+
+---
+
+## Scenarios
+
+### Scenario A — Main repo with code + linked satellite repos
+
+The most common setup. One repo owns the shared specs and also implements some of them. Other repos implement the rest.
+
+```
+platform-repo/                        ← owns shared specs + platform-side code
+  taproot/specs/
+    auth/
+      plugin-login/
+        usecase.md                    ← shared spec
+        platform-side/impl.md         ← state: complete (platform's ACs)
+        plugin-side/impl.md           ← state: delegated (plugin's ACs)
+    api-contract/
+      global-truths/
+        api-schema_intent.md          ← shared truth: API shape
+
+plugin-repo/                          ← implements plugin-login locally
+  taproot/specs/
+    auth/
+      plugin-login/
+        link.md                       ← links to platform-repo's usecase.md
+        local-impl/impl.md            ← state: complete
+  taproot/global-truths/
+    api-schema-link.md                ← truth link → platform-repo's api-schema_intent.md
+```
+
+**How it works:**
+- `taproot coverage` in platform-repo counts `plugin-login` as fully covered: one `complete` impl (platform side) + one `delegated` impl (plugin side).
+- `taproot coverage` in plugin-repo counts `plugin-login` as implemented via the local `impl.md` that references `link.md`.
+- The truth-check hook in plugin-repo enforces `api-schema_intent.md` at every spec commit — even though the file lives in platform-repo.
+
+---
+
+### Scenario B — Pure coordination repo (no code of its own)
+
+A dedicated requirements repo that owns all shared specs. All implementing repos link to it. The coordination repo itself has no source code.
+
+```
+requirements-repo/                    ← owns all shared specs; no code
+  taproot/specs/
+    checkout/
+      apply-discount/usecase.md
+      apply-discount/web-impl.md      ← state: delegated (web-repo's ACs)
+      apply-discount/mobile-impl.md   ← state: delegated (mobile-repo's ACs)
+    payments/
+      process-payment/usecase.md
+      process-payment/gateway-impl.md ← state: delegated
+  taproot/global-truths/
+    pricing-rules_intent.md           ← canonical pricing rules
+    order-states_intent.md            ← canonical order state machine
+
+web-repo/
+  taproot/specs/checkout/apply-discount/
+    link.md                           ← → requirements-repo's usecase.md
+    impl/impl.md                      ← state: complete
+
+mobile-repo/
+  taproot/specs/checkout/apply-discount/
+    link.md                           ← → requirements-repo's usecase.md
+    impl/impl.md                      ← state: complete
+```
+
+**What the coordination repo gains:**
+- Full coverage visibility across all repos from a single hierarchy
+- Every `delegated` impl names which repo handles it and which ACs
+- Requirements can be refined once without touching any implementation repo
+
+**What each implementing repo gains:**
+- Independent coverage: `taproot coverage` in web-repo shows its own complete/pending status
+- Independent CI: `taproot check-orphans` in each repo verifies its own links
+- Shared truths: `pricing-rules_intent.md` is enforced in each implementing repo at commit time
+
+---
+
+### Scenario C — Shared global truths only
+
+Sometimes repos don't need to share specs — they just need to share a domain model, API contract, or naming convention. Truth links handle this without requiring a full spec hierarchy in the source repo.
+
+```
+platform-repo/
+  taproot/global-truths/
+    api-contract_intent.md    ← canonical REST API shape (field names, status codes)
+    domain-model_intent.md    ← canonical entity definitions
+
+service-a-repo/
+  taproot/global-truths/
+    api-contract-link.md      ← Type: truth → platform-repo's api-contract_intent.md
+    domain-model-link.md      ← Type: truth → platform-repo's domain-model_intent.md
+
+service-b-repo/
+  taproot/global-truths/
+    api-contract-link.md      ← same truth, independent link
+```
+
+**At commit time:** when a developer in service-a-repo commits a spec that uses a field name inconsistently with `api-contract_intent.md`, the truth-check hook blocks the commit — even though the truth file is in platform-repo. The hook resolves the link via `repos.yaml` and validates locally.
+
+---
+
+## Link file format
+
+A link file is a plain markdown file placed alongside the behaviour or inside `taproot/global-truths/`:
+
+```markdown
+# Link: Plugin Login
+
+**Repo:** https://github.com/org/platform-repo
+**Path:** taproot/specs/auth/plugin-login/usecase.md
+**Type:** behaviour
+
+**Description:** Plugin repo implements the auth handoff ACs (AC-3, AC-4). Platform handles session management (AC-1, AC-2).
+```
+
+| Field | Required | Values | Effect |
+|-------|----------|--------|--------|
+| `Repo` | ✓ | GitHub URL | Identifies the source repo; mapped in `repos.yaml` for local resolution |
+| `Path` | ✓ | Path in source repo | Points to `usecase.md`, `intent.md`, or a truth file |
+| `Type` | ✓ | `behaviour`, `intent`, `truth` | Controls how coverage counts the link; `truth` triggers commit-time enforcement |
+| `Description` | — | Free text | Documents why the link exists and which ACs this repo is responsible for |
+
+**File naming:**
+- `link.md` — standard name when a folder has one link
+- `platform-auth-link.md` — use a descriptive name when a folder contains multiple links
+
+**Placement:**
+- `behaviour` / `intent` links → place alongside the matching spec folder: `taproot/specs/<intent>/<behaviour>/link.md`
+- `truth` links → place in `taproot/global-truths/`: `taproot/global-truths/<name>-link.md`
+
+---
+
+## The two-sided workflow
+
+Cross-repo linking always involves two repos. Both sides need to be set up for coverage to be clean on both ends.
+
+### Linking repo side (you are implementing a spec from another repo)
+
+1. Create `link.md` in the appropriate folder:
+   ```markdown
+   # Link: <Title>
+   **Repo:** https://github.com/org/source-repo
+   **Path:** taproot/specs/auth/plugin-login/usecase.md
+   **Type:** behaviour
+   ```
+2. Create a local `impl.md` in the same folder that lists the link file in `## Source Files`:
+   ```markdown
+   ## Source Files
+   - `../link.md` — linked spec from platform-repo
+   - `src/auth/plugin-login.ts` — local implementation
+   ```
+3. Set `**State:** complete` when done. `taproot coverage` counts the linked behaviour as implemented.
+
+### Source repo side (your spec is implemented by a linking repo)
+
+Create a `delegated` impl.md so coverage stays clean in your repo too:
+
+```markdown
+# Implementation: plugin-repo (delegated)
+
+## Behaviour
+../usecase.md
+
+## Design Decisions
+- AC-3 (auth handoff) and AC-4 (token exchange) are implemented in plugin-repo.
+- Source files live in plugin-repo; this record exists for coverage completeness.
+
+## Source Files
+- (none — source files live in plugin-repo)
+
+## Status
+- **State:** delegated
+```
+
+**Why this matters:** without the `delegated` impl.md, the source repo's `taproot coverage` shows the behaviour as a gap — even though it's properly implemented in the linking repo. With it, both repos show clean coverage.
+
+Use `/tr-link` to be guided through both sides interactively.
+
+---
+
+## How coverage works
+
+`taproot coverage` counts linked items based entirely on the **local** impl.md state — no remote fetching required:
+
+| Local state | Coverage result |
+|-------------|----------------|
+| `impl.md` lists link in Source Files, `state: complete` | ✓ Implemented — `[linked]` |
+| `impl.md` lists link in Source Files, `state: in-progress` | ⏳ Pending — `[linked]` |
+| No `impl.md` references the link file | ✗ Gap — `[linked]` |
+| `impl.md` with `state: delegated` (source repo) | ✓ Delegated — counted as covered |
+
+Intent-type links count toward intent-level coverage; behaviour and truth links count toward behaviour-level coverage.
+
+---
+
+## Local resolution with `repos.yaml`
+
+`taproot check-orphans` and `taproot coverage` can display resolved link targets if you configure a local mapping. This file is **gitignored** — each developer maintains their own copy.
+
+Create `.taproot/repos.yaml`:
+
+```yaml
+"https://github.com/org/platform-repo": "/Users/you/code/platform-repo"
+"https://github.com/org/requirements-repo": "/Users/you/code/requirements-repo"
+```
+
+Without `repos.yaml`, coverage counting still works (it's based on local impl.md state). You'll see `⚠ unresolvable` warnings in coverage output for any links that can't be resolved — these are display-only and don't affect counts.
+
+---
+
+## CI setup
+
+`repos.yaml` is gitignored and cannot exist in CI. Set `TAPROOT_OFFLINE=1` to skip link resolution:
+
+```yaml
+# .github/workflows/taproot.yml
+- name: Validate
+  run: taproot validate-structure && taproot validate-format
+  env:
+    TAPROOT_OFFLINE: "1"
+```
+
+With `TAPROOT_OFFLINE=1`:
+- `taproot check-orphans` skips link resolution (emits a count of skipped links)
+- The truth-check hook skips linked truth validation
+- Coverage counting is unaffected (local impl.md state only)
+
+Each repo's CI validates its own hierarchy independently. There is no cross-repo CI aggregation in v1.
+
+---
+
+## What `/tr-link` does
+
+The `/tr-link` skill guides the full setup interactively:
+
+```
+/tr-link
+```
+
+It asks which side you're on (linking repo, source repo, or both), gathers the repo URL / path / type, suggests placement, creates the link file, optionally sets up `repos.yaml`, and walks you through creating the `delegated` impl.md in the source repo if needed.
+
+---
+
+## Checklist: setting up a new cross-repo link
+
+**In the linking repo:**
+- [ ] Create `link.md` with `Repo`, `Path`, `Type`
+- [ ] Create local `impl.md` listing `link.md` in `## Source Files`
+- [ ] Add entry to `.taproot/repos.yaml` (local, not committed)
+- [ ] Run `taproot check-orphans` to verify the link resolves
+- [ ] Commit link file + impl.md
+
+**In the source repo:**
+- [ ] Create `delegated` impl.md naming the linking repo and covered ACs
+- [ ] Ensure `delegated` is in `allowed_impl_states` in `taproot/settings.yaml`
+- [ ] Commit the delegated impl.md
+
+**For truth links (additionally):**
+- [ ] Place truth link file in `taproot/global-truths/` (not `taproot/specs/`)
+- [ ] Verify the truth-check hook resolves it: commit a hierarchy file and check for truth-check output

skills/audit-all.md

+# Skill: audit-all
+
+## Description
+
+Run a comprehensive review of an entire subtree — an intent and all its descendants, or the entire `taproot/` root. Applies the per-artifact review logic from `/taproot:audit` to each node, then adds cross-cutting analysis that can only be done by comparing artifacts against each other. Produces a consolidated report.
+
+## Inputs
+
+- `path` (optional): Path to an intent folder or the `taproot/` root. Defaults to `taproot/`.
+
+## Steps
+
+1. Run `taproot validate-structure --path <path>` and `taproot validate-format --path <path>`. Include any validation errors in the report as **Structural Issues** (resolve these before addressing semantic issues — a structurally invalid hierarchy produces unreliable analysis).
+
+2. Run `taproot check-orphans --path <path> --include-unimplemented`. Include results in the report as **Orphan & Coverage Issues**.
+
+3. Run `taproot sync-check --path <path>`. Include results in the report as **Staleness Warnings**.
+
+4. Walk the subtree top-down. For each artifact found:
+   - Read the file
+   - Apply the review logic from `/taproot:audit` (Steps 3 of that skill)
+   - Record findings tagged with the artifact path
+
+5. After reviewing all individual artifacts, perform **cross-cutting analysis**:
+
+   **Intent ↔ Behaviours:**
+   - For each intent, check every success criterion against the list of behaviours. Is there at least one behaviour that, if implemented, would contribute to satisfying each criterion? Flag criteria with no corresponding behaviour as **Coverage Gaps**.
+   - Are there behaviours that don't obviously serve any success criterion? Flag as **Potentially Gold-Plated**.
+   - Do sibling behaviours have contradictory postconditions? (e.g., behaviour A sets a flag, behaviour B assumes that flag is unset)
+
+   **Behaviours ↔ Implementations:**
+   - For each behaviour, check whether its main flow steps are traceable to at least one implementation. Steps with no implementation are **Unimplemented Flows**.
+   - Do implementations reference source files that have been modified more recently than the spec was last reviewed? (Cross-reference with `taproot sync-check` output.)
+
+   **Across the hierarchy:**
+   - Are there behaviours that are nearly identical across different intents? Possible duplication.
+   - Are there intents at similar levels of completion, where one could be sequenced to unblock the other?
+
+6. Assemble the consolidated report:
+
+```
+# Taproot Review: <path>
+
+## Structural Issues
+<from validate-structure and validate-format>
+
+## Orphan & Coverage Issues
+<from check-orphans>
+
+## Staleness Warnings
+<from sync-check>
+
+## Cross-Cutting Issues
+### Coverage Gaps
+### Contradictions
+### Duplication
+
+## Per-Artifact Findings
+
+### <artifact-path>
+**Blockers**: ...
+**Concerns**: ...
+**Suggestions**: ...
+
+```
+
+7. Close with a prioritized action list: "Recommended next steps: (1) resolve structural issues, (2) address blockers in [artifact], (3) fill coverage gaps for [criterion]."
+
+8. **Truth discovery pass** — if `taproot/global-truths/` exists and the hierarchy has 3 or more readable `intent.md`/`usecase.md` files (excluding `global-truths/`):
+
+   Run the same scan as `/tr-discover-truths` (Phase 2–3 of that skill): collect candidates not already defined in `global-truths/` and not suppressed by `taproot/backlog.md` dismissed entries.
+
+   If candidates are found, append to the report:
+
+   ```
+   ## Truth Candidates
+
+   The following implicit facts were detected in the hierarchy but are not yet captured as global truths:
+
+   - `<term>` (scope: <intent|behaviour|impl>) — found in: <spec-path>, <spec-path>
+   ...
+   ```
+
+   Then offer:
+   > "[P] Process candidates now via `/tr-discover-truths`  [D] Defer — append all to backlog"
+
+   **If [P]:** invoke `/tr-discover-truths` inline; return here when it completes.
+
+   **If [D]:** append each candidate to `taproot/backlog.md` as `- [YYYY-MM-DD] truth candidate: <term>`.
+
+   If no candidates found (hierarchy consistent with existing truths), append to report:
+   ```
+   ## Truth Candidates
+   No new candidates — hierarchy is consistent with existing global truths.
+   ```
+
+9. Present next steps:
+
+> 💡 If this session is getting long, consider running `/compact` or starting a fresh context before the next task.
+
+   **What's next?**
+   [1] `/tr-refine <highest-priority-path>` — fix the top-priority finding
+   [2] `/tr-next` — surface the next implementable behaviour
+   [3] `/tr-backlog <finding>` — capture a deferred finding before routing it to the hierarchy
+   [P] Plan these — build a `taproot/plan.md` from these findings
+
+## Output
+
+A consolidated review report covering the entire subtree, with structural issues, cross-cutting analysis, and per-artifact findings.
+
+## CLI Dependencies
+
+- `taproot validate-structure`
+- `taproot validate-format`
+- `taproot check-orphans`
+- `taproot sync-check`
+
+## Notes
+
+- For large hierarchies (>20 artifacts), batch the per-artifact review by intent to avoid overwhelming the user. Present one intent at a time and ask if they want to continue.
+- If the user wants to act on findings immediately, each finding can link to the skill that fixes it: `/taproot:refine` for behaviour and impl issues, `/taproot:intent` for intent issues, `/taproot:implement` for unimplemented flows.

skills/audit.md

+# Skill: audit
+
+## Description
+
+Stress-test a single Taproot artifact — an `intent.md`, `usecase.md`, or `impl.md` — by challenging it from multiple angles. Produces a structured critique with prioritized findings. Does **not** auto-modify the artifact; the user decides what to act on.
+
+## Inputs
+
+- `path` (required): Path to a Taproot artifact (`intent.md`, `usecase.md`, or `impl.md`).
+
+## Steps
+
+1. Read the artifact at `path`. Identify its type by filename.
+
+2. If the artifact has a parent (e.g., a `usecase.md` has a parent `intent.md`), read the parent to understand context. If siblings exist (other behaviours under the same intent), read those too — cross-checking is part of a thorough review.
+
+3. Apply the challenge set appropriate to the artifact type:
+
+   **For `intent.md`:**
+   - Is the goal measurable? Can you unambiguously declare it achieved?
+   - Are the success criteria specific enough, or can you hit them without delivering real value?
+   - Who is missing from the stakeholder list? (security team? operations? legal? downstream systems? support?)
+   - What happens if this is never built? Is the status quo actually acceptable, or is the cost of inaction undersold?
+   - Is this one intent or multiple intents in a trenchcoat? (Signs: "and" in the goal, >4 success criteria, multiple unrelated stakeholder groups)
+   - What is the smallest version of this that would deliver value? Is the current scope justified?
+   - Do any success criteria contradict each other, or compete for the same finite resource (time, budget, attention)?
+   - Are the constraints real constraints (regulatory, physical, contractual) or assumed constraints that should be challenged?
+
+   **For `usecase.md`:**
+   - Does every step in the main flow have a clear actor and a clear outcome?
+   - What happens when step N fails? Map every failure mode — missing network, invalid state, concurrent users, timeout.
+   - What are the performance expectations? Is 100ms acceptable? 10 seconds? Does it matter? (Unstated = undefined = will cause conflict later.)
+   - How does this behave under load? Concurrent executions? Race conditions on shared state?
+   - What data does this touch, and what happens if that data is malformed, missing, or stale?
+   - Is this one UseCase or two? (Signs: "or" in the main flow, alternate flow that rewrites most of the main flow, two distinct actors)
+   - What happens at the boundaries — first use ever, N+1th use, quota exhaustion, rollback after failure?
+   - Are the postconditions complete? Does something need to be notified? Logged? Cleaned up?
+   - Do the error conditions cover all failure modes discovered above, with specific system responses?
+
+   **For `impl.md`:**
+   - Is each design decision justified by the usecase requirements, or is it "we always do it this way"?
+   - What are the failure modes of the chosen approach? Under what conditions does it break?
+   - Are the tests verifying observable behaviour from the actor's perspective, or are they testing implementation details?
+   - What is NOT covered by the listed tests that should be? (Error paths, concurrent access, edge inputs, integration with external systems)
+   - Will this implementation survive the next likely change to the behaviour spec? (e.g., if a new actor is added, or a new postcondition)
+   - Are the source files listed complete? Could the behaviour actually be satisfied by these files, or are there missing dependencies?
+   - Do the commits listed account for all the code in the source files? Are there uncommitted changes?
+
+4. Categorize every finding:
+   - **Blocker** — must be resolved before proceeding (spec is incomplete or contradictory in a way that will cause implementation failures)
+   - **Concern** — should be addressed soon (spec has a gap or assumption that will likely cause problems)
+   - **Suggestion** — worth considering (improvement that reduces risk or improves clarity, but not urgent)
+
+5. Present findings in priority order (blockers first), using concrete examples from the artifact text. For each finding, quote the specific line or section being challenged.
+
+6. Present next steps:
+
+> 💡 If this session is getting long, consider running `/compact` or starting a fresh context before the next task.
+
+   **What's next?**
+   [1] `/tr-refine <path>` — apply the findings to the spec
+   [2] `/tr-implement <path>/` — spec is clean; proceed to implementation
+   [3] `/tr-backlog <finding>` — capture an out-of-scope issue for later without routing it now
+   [P] Plan these — build a `taproot/plan.md` from these findings
+
+## Output
+
+A structured critique report with findings grouped as **Blockers**, **Concerns**, and **Suggestions**. Each finding quotes the relevant artifact text and explains the risk.
+
+The artifact is NOT modified.
+
+## CLI Dependencies
+
+None during review. The user then decides whether to run:
+- `taproot validate-format` (to check current state)
+- `/taproot:refine` (to apply suggested changes)
+- `/taproot:intent` (to revise the intent)
+
+## Notes
+
+- Do not soften the critique. The purpose is to find real problems before implementation, not to validate the work. A review that finds nothing is not a success — it means you weren't looking hard enough.
+- If the artifact is clearly a placeholder or stub (lots of `<placeholder>` text), flag this explicitly rather than reviewing the placeholders themselves.

skills/link.md

+# Skill: link
+
+## Description
+
+Create a cross-repo link file (`link.md`) that references a spec — intent, behaviour, or global truth — in another repository. The link file is the mechanism by which a linking repo claims traceability to a source repo's requirements without duplicating them.
+
+## Inputs
+
+- `target` (optional): shorthand in the form `<repo-url> <path-in-source-repo> <type>` — if provided, skips the interactive dialogue and goes straight to placement.
+
+## Steps
+
+0. **Identify which side you're on.** Cross-repo linking is a two-sided workflow:
+
+   - **Linking repo** (you are implementing a spec or referencing a truth that lives in another repo): create a `link.md` — steps 1–7 below.
+   - **Source repo** (your spec is being implemented by a linking repo, or your truth is being referenced): create a `delegated` impl.md (behaviour/intent links) or structure the truth file correctly (truth links) — jump to the **Source repo side** section now.
+   - **Both repos at once** (setting up the full connection from scratch): start with the **Source repo side** section, then return to step 1 for the linking repo side.
+
+   If it's unclear, ask: "Are you in the repo that *owns* the shared spec or truth, the repo that *implements or references* it, or setting up both?"
+
+   → If **source repo only or both repos**: skip steps 1–7 and go to **Source repo side** first.
+
+1. **Gather link details.** If `target` was provided, parse the three fields. Otherwise ask:
+
+   > "What spec do you want to link to?"
+   > - **Repo URL**: GitHub URL of the source repo (e.g. `https://github.com/org/platform-repo`)
+   > - **Path**: path to the target spec within the source repo (e.g. `taproot/specs/authentication/plugin-login/usecase.md`)
+   > - **Type**: `behaviour`, `intent`, or `truth` — determines how `taproot coverage` counts this link; `truth` links are also enforced at commit time via the truth-check hook
+   > - **Description** (optional): one line on why this link exists and what this repo is responsible for
+
+   Wait for all required fields before continuing.
+
+2. **Determine placement in the local hierarchy.** Suggest a placement that mirrors the target path structure:
+   - For a `behaviour` link targeting `taproot/specs/<intent>/<behaviour>/usecase.md` → suggest `taproot/specs/<intent>/<behaviour>/link.md`
+   - For an `intent` link targeting `taproot/specs/<intent>/intent.md` → suggest `taproot/specs/<intent>/link.md`
+   - For a `truth` link → suggest `taproot/global-truths/<name>-link.md` (truth links are placed in global-truths, not specs — the truth-check hook scans there at commit time)
+
+   Present the suggestion:
+   > "I'll place the link file at `<suggested-path>`. Does this location make sense, or would you like to put it somewhere else?"
+
+   If the folder does not yet exist, note: "I'll create `<folder>` — this folder will hold the link file and any local impl.md that claims responsibility for the linked behaviour."
+
+   Wait for confirmation or an alternate path before writing.
+
+3. **Derive a descriptive title** from the target path (e.g. `taproot/specs/auth/plugin-login/usecase.md` → "Plugin Login"). Use it in the `# Link:` heading.
+
+4. **Write the link file** at the confirmed path:
+
+   ```markdown
+   # Link: <title>
+
+   **Repo:** <repo-url>
+   **Path:** <path-in-source-repo>
+   **Type:** <type>
+
+   **Description:** <description>
+   ```
+
+   Omit the `**Description:**` line if no description was provided.
+
+5. **Check for `.taproot/repos.yaml`.** This file maps repo URLs to local filesystem paths, enabling `taproot check-orphans` and `taproot coverage` to resolve links locally.
+
+   - If `.taproot/repos.yaml` does not exist, offer:
+     > "`taproot check-orphans` and `taproot coverage` can resolve this link locally if you configure `.taproot/repos.yaml`. This file is gitignored — each developer maintains their own. Want me to create it now?
+     > [Y] Create `.taproot/repos.yaml` · [N] Skip (resolve online or configure later)"
+     >
+     > If [Y]: ask for the local path to the source repo clone, then write:
+     > ```yaml
+     > "<repo-url>": "/local/path/to/source-repo"
+     > ```
+     > Note: "`.taproot/` is gitignored — `repos.yaml` will not be committed."
+
+   - If `.taproot/repos.yaml` already exists but does not contain an entry for this repo URL, offer to append the entry.
+
+   - If the entry already exists, skip silently.
+
+6. **Validate** the link file:
+   ```
+   taproot validate-format --path <link-file-dir>
+   ```
+   Fix any validation errors before proceeding.
+
+7. **Explain the coverage connection.** After creating the link file, explain what's needed to have coverage count this link as implemented:
+   > "The link is created. To count it as implemented in `taproot coverage`, create a local `impl.md` in the same folder (`<folder>/impl.md`) that lists the link file in `## Source Files` with state `complete`. Without a local `impl.md`, the linked behaviour appears as a coverage gap — which is correct until you've actually implemented it."
+
+   Then ask: "Do you also need to update the **source repo** to mark these ACs as delegated? [Y] Guide me through the source repo side · [N] Skip"
+
+   If [Y]: proceed to the **Source repo side** section below.
+
+---
+
+### Source repo side
+
+**S-0.** Check the link type:
+- **`behaviour` or `intent` link**: the linking repo is implementing your spec — continue with S-1 through S-5 (delegated impl.md workflow).
+- **`truth` link**: the linking repo is enforcing your truth file at commit time — skip S-1 through S-5 and go to **Source repo side — truth link** below.
+
+---
+
+When a spec in the source repo has ACs that are implemented by a linking repo, create a `delegated` impl.md in the source repo so its coverage stays clean.
+
+**S-1.** Ask: "Which ACs in the source repo's spec are delegated to the linking repo, and which (if any) are implemented locally?"
+
+**S-2.** If some ACs are implemented locally: a standard `complete` impl.md for those ACs already exists (or will be created normally). No change needed for local ACs.
+
+**S-3.** For the delegated ACs, create an `impl.md` under the source repo's behaviour folder (e.g. `<intent>/<behaviour>/linking-repo-impl/impl.md`):
+
+   ```markdown
+   # Implementation: <linking-repo-name> (delegated)
+
+   ## Behaviour
+   ../usecase.md
+
+   ## Design Decisions
+   - ACs <list> are implemented in <linking-repo-name> (<repo-url>).
+   - Source files live in the linking repo; this impl.md records the delegation for coverage completeness.
+
+   ## Source Files
+   - (none — source files live in <linking-repo-name>)
+
+   ## Commits
+   - (none)
+
+   ## Tests
+   - (none — verified in the linking repo)
+
+   ## Status
+   - **State:** delegated
+   - **Created:** <date>
+   - **Last verified:** <date>
+   ```
+
+**S-4.** Confirm `delegated` is in `allowed_impl_states` in `taproot/settings.yaml`. If not, add it:
+   ```yaml
+   allowed_impl_states:
+     - complete
+     - in-progress
+     - delegated
+     # ...
+   ```
+
+**S-5.** Commit the delegated impl.md as a declaration commit in the source repo.
+
+---
+
+### Source repo side — truth link
+
+When the link type is `truth`, the source repo's role is to own and maintain the truth file. No delegated impl.md is needed — truth links are commit-time enforcement hooks, not coverage records.
+
+**T-1.** Locate or create the truth file in `taproot/global-truths/`. Use a filename that encodes the scope:
+- `<name>_intent.md` — enforced at intent, behaviour, and impl level (broadest; use for domain models, glossaries, business rules)
+- `<name>_behaviour.md` — enforced at behaviour and impl level
+- `<name>_impl.md` — enforced at impl level only (use for API contracts, technology constraints)
+- No scope suffix → treated as intent-scoped
+
+**T-2.** Truth files are **plain markdown — no YAML frontmatter**. Do not add a `---` frontmatter block. Scope is determined entirely by the filename suffix, not by any metadata inside the file.
+
+**T-3.** Write the truth file to be self-contained and unambiguous. It is read verbatim by the agent at commit time in the linking repo — the agent must be able to check conformance without fetching any other file.
+
+**T-4.** Do not cross-reference files in the linking repo from within the truth. The linking repo links *to* the truth; the truth must not depend on files in the linking repo. A back-reference creates a circular dependency that breaks offline resolution and creates fragile coupling.
+
+**T-5.** Ask the developer to run `taproot check-orphans` in the linking repo (with `repos.yaml` configured) to confirm the truth link resolves correctly.
+
+> Truth links do not affect coverage in either repo. The linking repo's commit hook enforces the truth at commit time; the source repo's coverage is unaffected.
+
+> If the linking repo's local changes require the truth file to be updated, surface a cross-repo handoff rather than editing the truth directly — see the **Cross-repo change handoff** pattern in `taproot/agent/docs/patterns.md`.
+
+---
+
+> 💡 If this session is getting long, consider running `/compact` or starting a fresh context before the next task.
+
+**What's next?**
+[1] `/tr-implement <folder>/` — create a local impl.md to claim this linked behaviour (linking repo side)
+[2] `/tr-commit` — commit the link file and/or delegated impl.md
+[3] Run `taproot check-orphans` after configuring `repos.yaml` to verify the link resolves
+
+## Output
+
+- A `link.md` file (or `<name>-link.md`) written to the confirmed path
+- Optionally, `.taproot/repos.yaml` created or updated with the repo mapping
+
+## CLI Dependencies
+
+- `taproot validate-format`
+
+## Notes
+
+- Link file name is `link.md` by convention. Use a descriptive name (e.g. `platform-auth-link.md`) only when a folder contains multiple links — an uncommon case.
+- The `Type` field controls how `taproot coverage` counts the link: `behaviour` and `truth` links affect behaviour-level coverage; `intent` links count toward intent-level coverage.
+- `repos.yaml` is gitignored by design — it is a developer-local mapping to local clones, not a committed project configuration. Each team member configures their own copy. Set `TAPROOT_OFFLINE=1` in CI to skip link resolution where `repos.yaml` cannot exist.
+- A link file alone does not claim implementation — it only asserts that a spec from another repo is relevant to this repo. A local `impl.md` referencing the link file in `## Source Files` is the traceability record.
+- `Type: truth` links are special: they live in `taproot/global-truths/` (not `taproot/specs/`), and the truth-check hook reads and enforces them at commit time — just like local truths. If repos.yaml cannot resolve the target, the commit is blocked unless `TAPROOT_OFFLINE=1`.
+- Full two-repo connection summary: **Source repo** creates `delegated` impl.md (notes linking repo + covered ACs). **Linking repo** creates `link.md` + local `impl.md` (lists link file in Source Files). Both coverage reports stay clean.

dist/adapters/index.js

@@ -583,3 +583,3 @@ /**
 
-This automatically runs \`taproot truth-sign\`, stages \`.taproot/.truth-check-session\`, and commits in one step. If you use plain \`git commit\`, run \`taproot truth-sign\` and stage the session file manually first.
+This automatically runs \`taproot truth-sign\`, stages \`taproot/truth-checks.md\`, and commits in one step. If you use plain \`git commit\`, run \`taproot truth-sign\` and stage the session file manually first.
 
@@ -586,0 +586,0 @@ ## Pre-commit Hook

dist/commands/check-orphans.d.ts

@@ -9,1 +9,2 @@ import type { Command } from 'commander';
 }): Promise<Violation[]>;
+export declare function checkLinkTargets(rootPath: string, projectRoot: string, visited?: Set<string>): Violation[];

dist/commands/check-orphans.js

@@ -9,2 +9,3 @@ import { readFileSync, existsSync } from 'fs';
 import { renderViolations, exitCode } from '../core/reporter.js';
+import { findLinkFiles, loadReposYaml, parseLinkFile, resolveLinkTarget } from '../core/link-parser.js';
 export function registerCheckOrphans(program) {
@@ -30,2 +31,3 @@ program
     const repoRoot = isGitRepo(cwd) ? (getRepoRoot(cwd) ?? cwd) : null;
+    const projectRoot = repoRoot ?? cwd;
     const tree = walkHierarchy(rootPath);
@@ -42,4 +44,107 @@ const nodes = flattenTree(tree);
     }
+    violations.push(...checkLinkTargets(rootPath, projectRoot));
     return violations;
 }
+export function checkLinkTargets(rootPath, projectRoot, visited = new Set()) {
+    // TAPROOT_OFFLINE skips all link resolution
+    if (process.env['TAPROOT_OFFLINE'] === '1') {
+        const linkFiles = findLinkFiles(rootPath);
+        if (linkFiles.length > 0) {
+            return [{
+                    type: 'warning',
+                    filePath: rootPath,
+                    code: 'LINK_VALIDATION_SKIPPED',
+                    message: `Link validation skipped (TAPROOT_OFFLINE=1) — ${linkFiles.length} link file(s) not checked`,
+                }];
+        }
+        return [];
+    }
+    const linkFiles = findLinkFiles(rootPath);
+    if (linkFiles.length === 0)
+        return [];
+    const reposMap = loadReposYaml(projectRoot);
+    const violations = [];
+    for (const linkFilePath of linkFiles) {
+        let content;
+        try {
+            content = readFileSync(linkFilePath, 'utf-8');
+        }
+        catch {
+            violations.push({ type: 'error', filePath: linkFilePath, code: 'LINK_UNREADABLE', message: 'Could not read link file' });
+            continue;
+        }
+        const parsed = parseLinkFile(content);
+        if (!parsed.repo || !parsed.path || !parsed.type) {
+            violations.push({
+                type: 'error',
+                filePath: linkFilePath,
+                code: 'LINK_INVALID_FORMAT',
+                message: `Link file is missing required fields: ${[!parsed.repo && 'Repo', !parsed.path && 'Path', !parsed.type && 'Type'].filter(Boolean).join(', ')}`,
+            });
+            continue;
+        }
+        if (reposMap === null) {
+            violations.push({
+                type: 'error',
+                filePath: linkFilePath,
+                code: 'LINK_TARGET_UNRESOLVABLE',
+                message: `Cannot resolve link — .taproot/repos.yaml not found. Create this file locally to map repo URLs to local filesystem paths. It must not be committed.`,
+            });
+            continue;
+        }
+        const resolvedPath = resolveLinkTarget(parsed.repo, parsed.path, reposMap);
+        if (resolvedPath === null) {
+            violations.push({
+                type: 'error',
+                filePath: linkFilePath,
+                code: 'LINK_TARGET_UNRESOLVABLE',
+                message: `Link target unresolvable — "${parsed.repo}" has no entry in .taproot/repos.yaml`,
+            });
+            continue;
+        }
+        // Cycle detection
+        if (visited.has(resolvedPath)) {
+            violations.push({
+                type: 'error',
+                filePath: linkFilePath,
+                code: 'LINK_CIRCULAR',
+                message: `Circular link detected — "${resolvedPath}" has already been visited in this chain`,
+            });
+            continue;
+        }
+        if (!existsSync(resolvedPath)) {
+            violations.push({
+                type: 'error',
+                filePath: linkFilePath,
+                code: 'LINK_TARGET_MISSING',
+                message: `Orphan link: target "${resolvedPath}" not found on disk`,
+            });
+            continue;
+        }
+        // Warn if the resolved target spec is in proposed (draft) state
+        const targetState = readSpecState(resolvedPath);
+        if (targetState === 'proposed') {
+            violations.push({
+                type: 'warning',
+                filePath: linkFilePath,
+                code: 'LINK_TARGET_DRAFT',
+                message: `Linked spec "${resolvedPath}" is in 'proposed' state — contents may change. Review this link after the source spec is finalised.`,
+            });
+        }
+        // Follow one level of transitive links from the source repo (cycle detection)
+        const newVisited = new Set(visited);
+        newVisited.add(resolvedPath);
+        const sourceRepoRoot = reposMap.get(parsed.repo.trim());
+        if (sourceRepoRoot && existsSync(sourceRepoRoot)) {
+            const transitive = checkLinkTargets(sourceRepoRoot, sourceRepoRoot, newVisited);
+            // Only propagate circular violations (not other orphan errors from the source repo)
+            violations.push(...transitive.filter(v => v.code === 'LINK_CIRCULAR').map(v => ({
+                ...v,
+                filePath: linkFilePath,
+                message: `Circular link via source repo: ${v.message}`,
+            })));
+        }
+    }
+    return violations;
+}
 function checkImplReferences(node, repoRoot) {
@@ -120,2 +225,18 @@ const filePath = join(node.absolutePath, 'impl.md');
 }
+/** Read the **State:** value from the ## Status section of a spec file (first 50 lines only). */
+function readSpecState(filePath) {
+    try {
+        const content = readFileSync(filePath, 'utf-8');
+        const lines = content.split('\n').slice(0, 50);
+        for (const line of lines) {
+            const m = /\*\*State:\*\*\s*(\S+)/.exec(line);
+            if (m)
+                return m[1].trim().replace(/[^a-z-]/g, '');
+        }
+        return null;
+    }
+    catch {
+        return null;
+    }
+}
 function readBehaviourState(node) {
@@ -122,0 +243,0 @@ try {

dist/commands/check-orphans.js.map

@@ -1,1 +0,1 @@
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dist/commands/commit.js

@@ -72,3 +72,3 @@ import { existsSync } from 'fs';
         // Stage the session marker
-        const sessionFile = '.taproot/.truth-check-session';
+        const sessionFile = 'taproot/truth-checks.md';
         if (existsSync(join(cwd, sessionFile))) {
@@ -75,0 +75,0 @@ const addSession = spawnSync('git', ['add', sessionFile], { cwd, encoding: 'utf-8' });

dist/commands/commit.js.map

@@ -1,1 +0,1 @@
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dist/commands/commithook.js

@@ -11,2 +11,3 @@ import { spawnSync } from 'child_process';
 import { runValidateFormat } from './validate-format.js';
+import { checkLinkTargets } from './check-orphans.js';
 import { renderViolations } from '../core/reporter.js';
@@ -205,2 +206,19 @@ import { globalTruthsDir, collectApplicableTruths, docLevelFromFilename, validateTruthSession, } from '../core/truth-checker.js';
     }
+    // Main Flow: must not contain implementation terms (SQL, HTTP, REST, endpoint, etc.)
+    const mainFlowHeading = localizedHeading('Main Flow', pack);
+    const mainFlowBody = getSection(content, mainFlowHeading);
+    if (mainFlowBody !== null && !pack) {
+        const lines = mainFlowBody.split('\n').filter(l => /^\s*\d+\./.test(l));
+        for (const line of lines) {
+            if (TECH_KEYWORDS.test(line)) {
+                const match = line.match(TECH_KEYWORDS)?.[0] ?? '';
+                failures.push({
+                    file: filePath,
+                    message: `Main Flow step contains implementation term: "${match}" — use actor-visible language instead`,
+                    hint: "Main Flow steps describe what the actor sees or the system produces — not internal mechanisms. Move SQL, HTTP, endpoint, and service-layer terms to impl.md.",
+                });
+                break; // one failure is enough to communicate the issue
+            }
+        }
+    }
     return failures;
@@ -358,2 +376,21 @@ }
         }
+        // Out-of-root check: warn if hierarchy files are staged outside the configured root
+        // config.root is always absolute (resolved by loadConfig). Staged files are relative.
+        // Compute a relative root from cwd to compare against staged relative paths.
+        const relRoot = relative(cwd, config.root).replace(/\\/g, '/').replace(/\/$/, '');
+        for (const f of staged) {
+            if (!isHierarchyFile(f) || isGlobalTruth(f) || isImplMd(f))
+                continue;
+            // Only check actual spec files — not taproot/backlog.md, plan.md, settings.yaml, etc.
+            if (!f.endsWith('intent.md') && !f.endsWith('usecase.md'))
+                continue;
+            const normalised = f.replace(/\\/g, '/');
+            if (!normalised.startsWith(relRoot + '/') && normalised !== relRoot) {
+                process.stdout.write(`taproot commithook — Requirement commit: hierarchy file outside configured root\n` +
+                    `  ✗ ${f}\n` +
+                    `    → This file is outside the configured hierarchy root (\`${relRoot}/\`).\n` +
+                    `      Move it to \`${relRoot}/${normalised.split('/').slice(1).join('/')}\` or update \`root:\` in \`taproot/settings.yaml\`.\n`);
+                failed = true;
+            }
+        }
         // Proposed-state gate: block newly added usecase.md files in 'proposed' state
@@ -412,2 +449,5 @@ const newlyAdded = getNewlyAddedFiles(cwd);
     if (tiers.includes('declaration')) {
+        // Collect renamed (moved) impl files — these are relocations, not new declarations
+        const renameResult = spawnSync('git', ['diff', '--cached', '--diff-filter=R', '--name-only'], { cwd, encoding: 'utf-8' });
+        const renamedImplFiles = new Set((renameResult.status === 0 ? renameResult.stdout : '').split('\n').filter(Boolean));
         for (const implFile of staged.filter(isImplMd)) {
@@ -418,2 +458,5 @@ // Skip DoR for modifications to already-committed impl files — only gate first declarations
                 continue;
+            // Skip DoR for renamed/moved impl files — relocation is not a new declaration
+            if (renamedImplFiles.has(implFile))
+                continue;
             const report = runDorChecks(implFile, cwd);
@@ -539,2 +582,19 @@ if (!report.allPassed) {
     }
+    // Link validation — runs on every commit that touches taproot/ or link files
+    const { config: linkConfig } = loadConfig(cwd);
+    const linkWarnOnly = linkConfig['linkValidation'] === 'warn-only';
+    const linkViolations = checkLinkTargets(resolve(cwd, linkConfig.root ?? 'taproot/specs/'), cwd);
+    const linkErrors = linkViolations.filter(v => v.type === 'error');
+    const linkSkipWarnings = linkViolations.filter(v => v.code === 'LINK_VALIDATION_SKIPPED');
+    if (linkSkipWarnings.length > 0) {
+        process.stdout.write('taproot commithook — Link validation skipped (offline mode):\n');
+        process.stdout.write(renderViolations(linkSkipWarnings));
+    }
+    if (linkErrors.length > 0) {
+        process.stdout.write('taproot commithook — Link validation:\n');
+        process.stdout.write(renderViolations(linkErrors));
+        if (!linkWarnOnly) {
+            failed = true;
+        }
+    }
     return failed ? 1 : 0;
@@ -541,0 +601,0 @@ }

dist/commands/commithook.js.map

@@ -1,1 +0,1 @@
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dist/commands/coverage.d.ts

 import type { Command } from 'commander';
 export type CoverageFormat = 'tree' | 'json' | 'markdown' | 'context';
+export interface LinkedItemSummary {
+    linkFilePath: string;
+    linkType: string;
+    implState: 'complete' | 'pending' | 'gap';
+    warnUnresolvable: boolean;
+}
 export interface ImplSummary {
@@ -16,2 +22,3 @@ name: string;
     subBehaviours: BehaviourSummary[];
+    linkedItems: LinkedItemSummary[];
 }
@@ -23,2 +30,3 @@ export interface IntentSummary {
     behaviours: BehaviourSummary[];
+    linkedItems: LinkedItemSummary[];
 }
@@ -35,2 +43,3 @@ export interface CoverageReport {
         deferredImpls: number;
+        linkedIntents: number;
     };
@@ -37,0 +46,0 @@ }

dist/commands/coverage.js

@@ -1,3 +0,3 @@
-import { readFileSync, writeFileSync } from 'fs';
-import { join, resolve } from 'path';
+import { readFileSync, writeFileSync, readdirSync } from 'fs';
+import { join, resolve, relative, basename } from 'path';
 import { loadConfig } from '../core/config.js';
@@ -7,2 +7,3 @@ import { walkHierarchy } from '../core/fs-walker.js';
 import { parseImplData } from '../core/impl-reader.js';
+import { parseLinkFile, loadReposYaml, resolveLinkTarget } from '../core/link-parser.js';
 export function registerCoverage(program) {
@@ -46,4 +47,5 @@ program
 export async function runCoverage(options) {
-    const { config } = loadConfig(options.cwd);
+    const { config, configDir } = loadConfig(options.cwd);
     const rootPath = options.path ? resolve(options.path) : config.root;
+    const reposMap = loadReposYaml(configDir);
     const tree = walkHierarchy(rootPath);
@@ -53,3 +55,3 @@ const intents = [];
         if (child.marker === 'intent') {
-            intents.push(buildIntentSummary(child));
+            intents.push(buildIntentSummary(child, rootPath, reposMap));
         }
@@ -64,2 +66,3 @@ }
     let deferredImplCount = 0;
+    let linkedIntentCount = 0;
     function countBehaviour(b) {
@@ -84,2 +87,13 @@ if (b.state === 'deferred') {
         }
+        // Count linked behaviour/truth items toward impl totals
+        for (const linked of b.linkedItems) {
+            if (linked.linkType === 'intent')
+                continue;
+            behaviourCount++;
+            if (linked.implState !== 'gap') {
+                implCount++;
+                if (linked.implState === 'complete')
+                    completeCount++;
+            }
+        }
         for (const sub of b.subBehaviours)
@@ -91,2 +105,6 @@ countBehaviour(sub);
             countBehaviour(b);
+        for (const linked of intent.linkedItems) {
+            if (linked.linkType === 'intent')
+                linkedIntentCount++;
+        }
     }
@@ -103,2 +121,3 @@ return {
             deferredImpls: deferredImplCount,
+            linkedIntents: linkedIntentCount,
         },
@@ -141,3 +160,74 @@ };
 }
-function buildBehaviourSummary(node) {
+function findDirectLinkFiles(folderPath) {
+    try {
+        return readdirSync(folderPath)
+            .filter(f => f === 'link.md' || f.endsWith('-link.md'))
+            .map(f => join(folderPath, f));
+    }
+    catch {
+        return [];
+    }
+}
+function checkLinkImplState(linkFilePath, node) {
+    const implNodes = node.children.filter(c => c.marker === 'impl');
+    for (const implNode of implNodes) {
+        const implFilePath = join(implNode.absolutePath, 'impl.md');
+        try {
+            const content = readFileSync(implFilePath, 'utf-8');
+            const doc = parseMarkdown(implFilePath, content);
+            const data = parseImplData(doc);
+            const mentionsLink = data.sourceFiles.some(sf => {
+                try {
+                    return resolve(implNode.absolutePath, sf) === linkFilePath;
+                }
+                catch {
+                    return false;
+                }
+            });
+            if (mentionsLink) {
+                const statusSection = doc.sections.get('status');
+                const stateMatch = statusSection ? /\*\*State:\*\*\s*(\S+)/.exec(statusSection.rawBody) : null;
+                const state = stateMatch?.[1]?.trim() ?? 'unknown';
+                return state === 'complete' ? 'complete' : 'pending';
+            }
+        }
+        catch {
+            // ignore
+        }
+    }
+    return 'gap';
+}
+function buildLinkedItems(node, rootPath, reposMap) {
+    const linkFiles = findDirectLinkFiles(node.absolutePath);
+    return linkFiles.map(linkFilePath => {
+        let linkType = 'behaviour';
+        let warnUnresolvable = false;
+        try {
+            const content = readFileSync(linkFilePath, 'utf-8');
+            const parsed = parseLinkFile(content);
+            linkType = parsed.type ?? 'behaviour';
+            if (parsed.repo) {
+                if (reposMap === null) {
+                    warnUnresolvable = true;
+                }
+                else {
+                    const resolved = resolveLinkTarget(parsed.repo, parsed.path ?? '', reposMap);
+                    if (!resolved)
+                        warnUnresolvable = true;
+                }
+            }
+        }
+        catch {
+            // use defaults
+        }
+        const implState = checkLinkImplState(linkFilePath, node);
+        return {
+            linkFilePath: relative(rootPath, linkFilePath),
+            linkType,
+            implState,
+            warnUnresolvable,
+        };
+    });
+}
+function buildBehaviourSummary(node, rootPath, reposMap) {
     const state = readState(node, 'usecase.md');
@@ -151,8 +241,9 @@ const implementations = [];
         else if (child.marker === 'behaviour') {
-            subBehaviours.push(buildBehaviourSummary(child));
+            subBehaviours.push(buildBehaviourSummary(child, rootPath, reposMap));
         }
     }
-    return { name: node.name, path: node.relativePath, state, implementations, subBehaviours };
+    const linkedItems = buildLinkedItems(node, rootPath, reposMap);
+    return { name: node.name, path: node.relativePath, state, implementations, subBehaviours, linkedItems };
 }
-function buildIntentSummary(node) {
+function buildIntentSummary(node, rootPath, reposMap) {
     const state = readState(node, 'intent.md');
@@ -162,6 +253,7 @@ const behaviours = [];
         if (child.marker === 'behaviour') {
-            behaviours.push(buildBehaviourSummary(child));
+            behaviours.push(buildBehaviourSummary(child, rootPath, reposMap));
         }
     }
-    return { name: node.name, path: node.relativePath, state, behaviours };
+    const linkedItems = buildLinkedItems(node, rootPath, reposMap);
+    return { name: node.name, path: node.relativePath, state, behaviours, linkedItems };
 }
@@ -180,7 +272,15 @@ // ─── Formatters ──────────────────────────────────────────────────────────────
         lines.push(`Intent: ${intent.name} [${intent.state}]`);
+        const linkedIntent = intent.linkedItems.filter(l => l.linkType === 'intent');
         const bList = intent.behaviours;
+        const allChildren = [...bList, ...linkedIntent];
         for (let bi = 0; bi < bList.length; bi++) {
-            const isLast = bi === bList.length - 1;
+            const isLast = bi === allChildren.length - 1;
             renderBehaviourTree(bList[bi], lines, isLast ? '└─' : '├─', isLast ? '  ' : '│  ');
         }
+        for (let li = 0; li < linkedIntent.length; li++) {
+            const linked = linkedIntent[li];
+            const isLast = bList.length + li === allChildren.length - 1;
+            const warn = linked.warnUnresolvable ? ' ⚠ unresolvable' : '';
+            lines.push(`  ${isLast ? '└─' : '├─'} [linked intent] ${basename(linked.linkFilePath)}${warn}`);
+        }
     }
@@ -191,2 +291,5 @@ lines.push('');
     lines.push(`${t.completeImpls}/${t.implementations} complete, ${t.testedImpls}/${t.implementations} with tests`);
+    if (t.linkedIntents > 0) {
+        lines.push(`${t.linkedIntents} linked intent${t.linkedIntents !== 1 ? 's' : ''}`);
+    }
     lines.push('');
@@ -200,3 +303,4 @@ return lines.join('\n');
     lines.push(`  ${prefix} ${b.name} [${b.state}] ${bar} ${completeImpls}/${implTotal} impl`);
-    const allChildren = [...b.implementations, ...b.subBehaviours];
+    const linkedBehaviour = b.linkedItems.filter(l => l.linkType !== 'intent');
+    const allChildren = [...b.implementations, ...b.subBehaviours, ...linkedBehaviour];
     for (let i = 0; i < b.implementations.length; i++) {
@@ -208,5 +312,13 @@ const impl = b.implementations[i];
     }
+    for (let i = 0; i < linkedBehaviour.length; i++) {
+        const linked = linkedBehaviour[i];
+        const offset = b.implementations.length;
+        const isLast = offset + i === allChildren.length - 1;
+        const warn = linked.warnUnresolvable ? ' ⚠ unresolvable' : '';
+        lines.push(`  ${childPrefix}  ${isLast ? '└─' : '├─'} [linked] ${linked.implState} — ${basename(linked.linkFilePath)}${warn}`);
+    }
     for (let i = 0; i < b.subBehaviours.length; i++) {
         const sub = b.subBehaviours[i];
-        const isLast = i === b.subBehaviours.length - 1;
+        const offset = b.implementations.length + linkedBehaviour.length;
+        const isLast = offset + i === allChildren.length - 1;
         renderBehaviourTree(sub, lines, `${childPrefix}  ${isLast ? '└─' : '├─'}`, `${childPrefix}  ${isLast ? '  ' : '│  '}`);
@@ -216,6 +328,9 @@ }
 function countAllImpls(b) {
-    return b.implementations.length + b.subBehaviours.reduce((n, s) => n + countAllImpls(s), 0);
+    const linkedNonIntent = b.linkedItems.filter(l => l.linkType !== 'intent' && l.implState !== 'gap').length;
+    return b.implementations.length + linkedNonIntent + b.subBehaviours.reduce((n, s) => n + countAllImpls(s), 0);
 }
 function countCompleteImpls(b) {
+    const linkedComplete = b.linkedItems.filter(l => l.linkType !== 'intent' && l.implState === 'complete').length;
     return (b.implementations.filter(i => i.state === 'complete').length +
+        linkedComplete +
         b.subBehaviours.reduce((n, s) => n + countCompleteImpls(s), 0));
@@ -256,2 +371,10 @@ }
     }
+    const linkedBehaviour = b.linkedItems.filter(l => l.linkType !== 'intent');
+    if (linkedBehaviour.length > 0) {
+        for (const linked of linkedBehaviour) {
+            const warn = linked.warnUnresolvable ? ' ⚠️ unresolvable' : '';
+            lines.push(`- **[linked]** \`[${linked.implState}]\` — ${basename(linked.linkFilePath)}${warn}`);
+        }
+        lines.push('');
+    }
     const nextHeading = heading.length < 6 ? heading + '#' : heading;
@@ -258,0 +381,0 @@ for (const sub of b.subBehaviours) {

dist/commands/coverage.js.map

@@ -1,1 +0,1 @@
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dist/commands/init.d.ts

@@ -9,2 +9,6 @@ import type { Command } from 'commander';
 export type TemplateName = typeof AVAILABLE_TEMPLATES[number];
+export declare const TEMPLATE_PROMPT_CHOICES: Array<{
+    name: string;
+    value: string;
+}>;
 export declare const DOMAIN_PRESETS: Record<string, {
@@ -11,0 +15,0 @@ label: string;

dist/commands/init.js

@@ -116,2 +116,7 @@ import { existsSync, mkdirSync, writeFileSync, readdirSync, readFileSync, cpSync } from 'fs';
 export const AVAILABLE_TEMPLATES = ['webapp', 'cli-tool'];
+export const TEMPLATE_PROMPT_CHOICES = [
+    { name: 'No template — start with an empty hierarchy', value: '' },
+    { name: 'webapp        — SaaS web application (user auth, profiles)', value: 'webapp' },
+    { name: 'cli-tool      — Command-line tool or developer utility', value: 'cli-tool' },
+];
 export const DOMAIN_PRESETS = {
@@ -134,5 +139,4 @@ coding: { label: 'Coding / software', vocabulary: {} },
 export const SKILL_FILES = [
-    'analyse-change.md',
-    'review.md',
-    'review-all.md',
+    'audit.md',
+    'audit-all.md',
     'grill-me.md',
@@ -146,3 +150,2 @@ 'intent.md',
     'promote.md',
-    'decompose.md',
     'next.md',
@@ -156,3 +159,2 @@ 'plan.md',
     'define-truth.md',
-    'design-constraints.md',
     'ineed.md',
@@ -165,2 +167,3 @@ 'research.md',
     'backlog.md',
+    'link.md',
 ];
@@ -178,2 +181,5 @@ export function applyTemplate(templateName, cwd, force = false) {
     const destTaprootDir = join(cwd, 'taproot');
+    if (existsSync(destTaprootDir) && !force) {
+        throw new Error(`taproot/ already exists — use --force to overwrite or copy manually from examples/${templateName}/`);
+    }
     if (existsSync(srcTaprootDir)) {
@@ -224,7 +230,3 @@ cpSync(srcTaprootDir, destTaprootDir, { recursive: true });
                     message: 'Start from a template?',
-                    choices: [
-                        { name: 'No template — start with an empty hierarchy', value: '' },
-                        { name: 'webapp        — SaaS web application (user auth, profiles)', value: 'webapp' },
-                        { name: 'cli-tool      — Command-line tool or developer utility', value: 'cli-tool' },
-                    ],
+                    choices: TEMPLATE_PROMPT_CHOICES,
                 });
@@ -231,0 +233,0 @@ if (chosen) {

dist/commands/init.js.map

@@ -1,1 +0,1 @@
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dist/commands/plan.js

@@ -121,3 +121,3 @@ import { readFileSync } from 'fs';
     if (report.allImplemented) {
-        lines.push('All behaviours are implemented. Consider running `taproot check-orphans` or `/tr-review-all`.');
+        lines.push('All behaviours are implemented. Consider running `taproot check-orphans` or `/tr-audit-all`.');
         lines.push('');
@@ -124,0 +124,0 @@ return lines.join('\n');

dist/commands/plan.js.map

@@ -1,1 +0,1 @@
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+{"version":3,"file":"plan.js","sourceRoot":"","sources":["../../src/commands/plan.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,YAAY,EAAc,MAAM,IAAI,CAAC;AAC9C,OAAO,EAAE,IAAI,EAAE,OAAO,EAAE,MAAM,MAAM,CAAC;AAErC,OAAO,EAAE,UAAU,EAAE,MAAM,mBAAmB,CAAC;AAC/C,OAAO,EAAE,aAAa,EAAE,MAAM,sBAAsB,CAAC;AACrD,OAAO,EAAE,aAAa,EAAE,MAAM,4BAA4B,CAAC;AAsB3D,iFAAiF;AAEjF,SAAS,SAAS,CAAC,QAAgB;IACjC,IAAI,CAAC;QACH,MAAM,OAAO,GAAG,YAAY,CAAC,QAAQ,EAAE,OAAO,CAAC,CAAC;QAChD,MAAM,GAAG,GAAG,aAAa,CAAC,QAAQ,EAAE,OAAO,CAAC,CAAC;QAC7C,MAAM,KAAK,GAAG,wBAAwB,CAAC,IAAI,CAAC,GAAG,CAAC,QAAQ,CAAC,GAAG,CAAC,QAAQ,CAAC,EAAE,OAAO,IAAI,EAAE,CAAC,CAAC;QACvF,OAAO,KAAK,EAAE,CAAC,CAAC,CAAC,EAAE,IAAI,EAAE,IAAI,SAAS,CAAC;IACzC,CAAC;IAAC,MAAM,CAAC;QACP,OAAO,SAAS,CAAC;IACnB,CAAC;AACH,CAAC;AAED,SAAS,QAAQ,CAAC,UAAkB;IAClC,IAAI,CAAC;QACH,MAAM,OAAO,GAAG,YAAY,CAAC,UAAU,EAAE,OAAO,CAAC,CAAC;QAClD,MAAM,GAAG,GAAG,aAAa,CAAC,UAAU,EAAE,OAAO,CAAC,CAAC;QAC/C,MAAM,QAAQ,GAAG,GAAG,CAAC,QAAQ,CAAC,GAAG,CAAC,MAAM,CAAC,EAAE,OAAO,IAAI,EAAE,CAAC;QACzD,OAAO,QAAQ,CAAC,OAAO,CAAC,UAAU,EAAE,EAAE,CAAC,CAAC,KAAK,CAAC,OAAO,CAAC,CAAC,CAAC,CAAC,EAAE,IAAI,EAAE,IAAI,EAAE,CAAC;IAC1E,CAAC;IAAC,MAAM,CAAC;QACP,OAAO,EAAE,CAAC;IACZ,CAAC;AACH,CAAC;AAED,iFAAiF;AAEjF,SAAS,QAAQ,CAAC,SAAiB,EAAE,kBAA2B;IAC9D,IAAI,SAAS,KAAK,WAAW,EAAE,CAAC;QAC9B,OAAO,EAAE,cAAc,EAAE,KAAK,EAAE,MAAM,EAAE,kCAAkC,EAAE,CAAC;IAC/E,CAAC;IACD,IAAI,SAAS,KAAK,aAAa,IAAI,kBAAkB,EAAE,CAAC;QACtD,OAAO,EAAE,cAAc,EAAE,KAAK,EAAE,MAAM,EAAE,sDAAsD,EAAE,CAAC;IACnG,CAAC;IACD,IAAI,SAAS,KAAK,UAAU,EAAE,CAAC;QAC7B,OAAO,EAAE,cAAc,EAAE,MAAM,EAAE,MAAM,EAAE,gEAAgE,EAAE,CAAC;IAC9G,CAAC;IACD,OAAO,EAAE,cAAc,EAAE,MAAM,EAAE,MAAM,EAAE,eAAe,SAAS,gCAAgC,EAAE,CAAC;AACtG,CAAC;AAED,iFAAiF;AAEjF,SAAS,iBAAiB,CAAC,IAAgB,EAAE,UAAkB,EAAE,UAAkB;IACjF,MAAM,UAAU,GAAoB,EAAE,CAAC;IAEvC,IAAI,IAAI,CAAC,MAAM,KAAK,QAAQ,EAAE,CAAC;QAC7B,MAAM,UAAU,GAAG,IAAI,CAAC,IAAI,CAAC,YAAY,EAAE,WAAW,CAAC,CAAC;QACxD,MAAM,IAAI,GAAG,IAAI,CAAC,IAAI,CAAC;QACvB,MAAM,IAAI,GAAG,QAAQ,CAAC,UAAU,CAAC,CAAC;QAClC,KAAK,MAAM,KAAK,IAAI,IAAI,CAAC,QAAQ,EAAE,CAAC;YAClC,UAAU,CAAC,IAAI,CAAC,GAAG,iBAAiB,CAAC,KAAK,EAAE,IAAI,EAAE,IAAI,CAAC,CAAC,CAAC;QAC3D,CAAC;QACD,OAAO,UAAU,CAAC;IACpB,CAAC;IAED,IAAI,IAAI,CAAC,MAAM,KAAK,WAAW,EAAE,CAAC;QAChC,MAAM,YAAY,GAAG,IAAI,CAAC,QAAQ,CAAC,MAAM,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,MAAM,KAAK,MAAM,CAAC,CAAC;QACpE,MAAM,aAAa,GAAG,IAAI,CAAC,QAAQ,CAAC,MAAM,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,MAAM,KAAK,WAAW,CAAC,CAAC;QAE1E,8BAA8B;QAC9B,KAAK,MAAM,GAAG,IAAI,aAAa,EAAE,CAAC;YAChC,UAAU,CAAC,IAAI,CAAC,GAAG,iBAAiB,CAAC,GAAG,EAAE,UAAU,EAAE,UAAU,CAAC,CAAC,CAAC;QACrE,CAAC;QAED,MAAM,SAAS,GAAG,SAAS,CAAC,IAAI,CAAC,IAAI,CAAC,YAAY,EAAE,YAAY,CAAC,CAAC,CAAC;QAEnE,oCAAoC;QACpC,IAAI,SAAS,KAAK,UAAU;YAAE,OAAO,UAAU,CAAC;QAEhD,wEAAwE;QACxE,MAAM,gBAAgB,GAAG,YAAY;aAClC,GAAG,CAAC,CAAC,CAAC,EAAE,CAAC,SAAS,CAAC,IAAI,CAAC,CAAC,CAAC,YAAY,EAAE,SAAS,CAAC,CAAC,CAAC;aACpD,MAAM,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,KAAK,UAAU,CAAC,CAAC;QACjC,MAAM,WAAW,GAAG,gBAAgB,CAAC,MAAM,GAAG,CAAC,IAAI,gBAAgB,CAAC,KAAK,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,KAAK,UAAU,CAAC,CAAC;QACjG,MAAM,eAAe,GAAG,gBAAgB,CAAC,MAAM,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,KAAK,aAAa,CAAC,CAAC,MAAM,CAAC;QAEjF,4BAA4B;QAC5B,IAAI,WAAW;YAAE,OAAO,UAAU,CAAC;QACnC,MAAM,EAAE,cAAc,EAAE,MAAM,EAAE,GAAG,QAAQ,CAAC,SAAS,EAAE,eAAe,GAAG,CAAC,CAAC,CAAC;QAE5E,UAAU,CAAC,IAAI,CAAC;YACd,aAAa,EAAE,IAAI,CAAC,YAAY;YAChC,aAAa,EAAE,IAAI,CAAC,IAAI;YACxB,UAAU;YACV,UAAU;YACV,SAAS;YACT,cAAc;YACd,oBAAoB,EAAE,MAAM;YAC5B,eAAe,EAAE,eAAe;SACjC,CAAC,CAAC;QAEH,OAAO,UAAU,CAAC;IACpB,CAAC;IAED,iCAAiC;IACjC,KAAK,MAAM,KAAK,IAAI,IAAI,CAAC,QAAQ,EAAE,CAAC;QAClC,UAAU,CAAC,IAAI,CAAC,GAAG,iBAAiB,CAAC,KAAK,EAAE,UAAU,EAAE,UAAU,CAAC,CAAC,CAAC;IACvE,CAAC;IACD,OAAO,UAAU,CAAC;AACpB,CAAC;AAED,iFAAiF;AAEjF,MAAM,CAAC,KAAK,UAAU,OAAO,CAAC,OAG7B;IACC,MAAM,EAAE,MAAM,EAAE,GAAG,UAAU,CAAC,OAAO,CAAC,GAAG,CAAC,CAAC;IAC3C,MAAM,QAAQ,GAAG,OAAO,CAAC,IAAI,CAAC,CAAC,CAAC,OAAO,CAAC,OAAO,CAAC,IAAI,CAAC,CAAC,CAAC,CAAC,MAAM,CAAC,IAAI,CAAC;IAEpE,MAAM,IAAI,GAAG,aAAa,CAAC,QAAQ,CAAC,CAAC;IACrC,MAAM,UAAU,GAAG,iBAAiB,CAAC,IAAI,EAAE,EAAE,EAAE,EAAE,CAAC,CAAC;IAEnD,qDAAqD;IACrD,UAAU,CAAC,IAAI,CAAC,CAAC,CAAC,EAAE,CAAC,EAAE,EAAE;QACvB,IAAI,CAAC,CAAC,cAAc,KAAK,CAAC,CAAC,cAAc,EAAE,CAAC;YAC1C,OAAO,CAAC,CAAC,cAAc,KAAK,KAAK,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC;QAC7C,CAAC;QACD,OAAO,CAAC,CAAC,aAAa,CAAC,aAAa,CAAC,CAAC,CAAC,aAAa,CAAC,CAAC;IACxD,CAAC,CAAC,CAAC;IAEH,OAAO;QACL,UAAU;QACV,cAAc,EAAE,UAAU,CAAC,MAAM,KAAK,CAAC;KACxC,CAAC;AACJ,CAAC;AAED,iFAAiF;AAEjF,MAAM,UAAU,UAAU,CAAC,MAAkB,EAAE,MAAkB;IAC/D,IAAI,MAAM,KAAK,MAAM,EAAE,CAAC;QACtB,OAAO,IAAI,CAAC,SAAS,CAAC,MAAM,EAAE,IAAI,EAAE,CAAC,CAAC,GAAG,IAAI,CAAC;IAChD,CAAC;IACD,OAAO,UAAU,CAAC,MAAM,CAAC,CAAC;AAC5B,CAAC;AAED,SAAS,UAAU,CAAC,MAAkB;IACpC,MAAM,KAAK,GAAa,EAAE,CAAC;IAE3B,IAAI,MAAM,CAAC,cAAc,EAAE,CAAC;QAC1B,KAAK,CAAC,IAAI,CAAC,8FAA8F,CAAC,CAAC;QAC3G,KAAK,CAAC,IAAI,CAAC,EAAE,CAAC,CAAC;QACf,OAAO,KAAK,CAAC,IAAI,CAAC,IAAI,CAAC,CAAC;IAC1B,CAAC;IAED,MAAM,GAAG,GAAG,MAAM,CAAC,UAAU,CAAC,MAAM,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,cAAc,KAAK,KAAK,CAAC,CAAC;IACtE,MAAM,IAAI,GAAG,MAAM,CAAC,UAAU,CAAC,MAAM,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,cAA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dist/commands/validate-format.js

@@ -10,2 +10,4 @@ import { resolve, join } from 'path';
 import { SECTION_PLACEHOLDERS } from '../templates/index.js';
+import { findLinkFiles, parseLinkFile } from '../core/link-parser.js';
+const VALID_LINK_TYPES = new Set(['intent', 'behaviour', 'truth']);
 const MARKER_FILE = {
@@ -77,4 +79,45 @@ intent: 'intent.md',
     }
+    // Link file format validation
+    violations.push(...validateLinkFiles(rootPath));
     return violations;
 }
+function validateLinkFiles(rootPath) {
+    const violations = [];
+    const linkFiles = findLinkFiles(rootPath);
+    for (const filePath of linkFiles) {
+        let content;
+        try {
+            content = readFileSync(filePath, 'utf-8');
+        }
+        catch {
+            violations.push({ type: 'error', filePath, code: 'UNREADABLE_FILE', message: 'Could not read link file' });
+            continue;
+        }
+        const parsed = parseLinkFile(content);
+        const missingFields = [];
+        if (!parsed.repo)
+            missingFields.push('Repo');
+        if (!parsed.path)
+            missingFields.push('Path');
+        if (!parsed.type)
+            missingFields.push('Type');
+        if (missingFields.length > 0) {
+            violations.push({
+                type: 'error',
+                filePath,
+                code: 'LINK_MISSING_FIELD',
+                message: `Link file missing required field(s): ${missingFields.join(', ')}. Required: **Repo:**, **Path:**, **Type:**`,
+            });
+        }
+        else if (!VALID_LINK_TYPES.has(parsed.type)) {
+            violations.push({
+                type: 'error',
+                filePath,
+                code: 'LINK_INVALID_TYPE',
+                message: `Invalid **Type:** value "${parsed.type}" — must be one of: intent, behaviour, truth`,
+            });
+        }
+    }
+    return violations;
+}
 function applyFix(content, parsed, markerType) {
@@ -81,0 +124,0 @@ const placeholders = SECTION_PLACEHOLDERS[markerType] ?? {};

dist/commands/validate-format.js.map

@@ -1,1 +0,1 @@
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+{"version":3,"file":"validate-format.js","sourceRoot":"","sources":["../../src/commands/validate-format.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,OAAO,EAAE,IAAI,EAAE,MAAM,MAAM,CAAC;AACrC,OAAO,EAAE,YAAY,EAAE,aAAa,EAAE,MAAM,IAAI,CAAC;AAEjD,OAAO,EAAE,UAAU,EAAE,MAAM,mBAAmB,CAAC;AAC/C,OAAO,EAAE,gBAAgB,EAAE,kBAAkB,EAAE,MAAM,qBAAqB,CAAC;AAC3E,OAAO,EAAE,aAAa,EAAE,WAAW,EAAE,MAAM,sBAAsB,CAAC;AAClE,OAAO,EAAE,aAAa,EAAE,MAAM,4BAA4B,CAAC;AAC3D,OAAO,EAAE,cAAc,EAAE,MAAM,+BAA+B,CAAC;AAC/D,OAAO,EAAE,gBAAgB,EAAE,QAAQ,EAAE,MAAM,qBAAqB,CAAC;AACjE,OAAO,EAAE,oBAAoB,EAAE,MAAM,uBAAuB,CAAC;AAC7D,OAAO,EAAE,aAAa,EAAE,aAAa,EAAE,MAAM,wBAAwB,CAAC;AAGtE,MAAM,gBAAgB,GAAG,IAAI,GAAG,CAAC,CAAC,QAAQ,EAAE,WAAW,EAAE,OAAO,CAAC,CAAC,CAAC;AAEnE,MAAM,WAAW,GAA+B;IAC9C,MAAM,EAAE,WAAW;IACnB,SAAS,EAAE,YAAY;IACvB,IAAI,EAAE,SAAS;CAChB,CAAC;AAEF,MAAM,UAAU,sBAAsB,CAAC,OAAgB;IACrD,OAAO;SACJ,OAAO,CAAC,iBAAiB,CAAC;SAC1B,WAAW,CAAC,qDAAqD,CAAC;SAClE,MAAM,CAAC,eAAe,EAAE,0CAA0C,CAAC;SACnE,MAAM,CAAC,OAAO,EAAE,sDAAsD,CAAC;SACvE,MAAM,CAAC,KAAK,EAAE,OAAyC,EAAE,EAAE;QAC1D,MAAM,UAAU,GAAG,MAAM,iBAAiB,CAAC;YACzC,IAAI,EAAE,OAAO,CAAC,IAAI;YAClB,GAAG,EAAE,OAAO,CAAC,GAAG,IAAI,KAAK;SAC1B,CAAC,CAAC;QACH,OAAO,CAAC,MAAM,CAAC,KAAK,CAAC,gBAAgB,CAAC,UAAU,CAAC,CAAC,CAAC;QACnD,OAAO,CAAC,IAAI,CAAC,QAAQ,CAAC,UAAU,CAAC,CAAC,CAAC;IACrC,CAAC,CAAC,CAAC;AACP,CAAC;AAED,MAAM,CAAC,KAAK,UAAU,iBAAiB,CAAC,OAIvC;IACC,MAAM,EAAE,MAAM,EAAE,SAAS,EAAE,GAAG,UAAU,CAAC,OAAO,CAAC,GAAG,CAAC,CAAC;IACtD,MAAM,QAAQ,GAAG,OAAO,CAAC,IAAI;QAC3B,CAAC,CAAC,OAAO,CAAC,OAAO,CAAC,IAAI,CAAC;QACvB,CAAC,CAAC,MAAM,CAAC,IAAI,CAAC,UAAU,CAAC,GAAG,CAAC,CAAC,CAAC,CAAC,MAAM,CAAC,IAAI,CAAC,CAAC,CAAC,OAAO,CAAC,SAAS,EAAE,MAAM,CAAC,IAAI,CAAC,CAAC;IAEhF,mCAAmC;IACnC,IAAI,IAAI,GAAG,IAAI,CAAC;IAChB,IAAI,MAAM,CAAC,QAAQ,EAAE,CAAC;QACpB,IAAI,GAAG,gBAAgB,CAAC,MAAM,CAAC,QAAQ,CAAC,CAAC;QACzC,IAAI,CAAC,IAAI,EAAE,CAAC;YACV,OAAO,CAAC,MAAM,CAAC,KAAK,CAClB,2BAA2B,MAAM,CAAC,QAAQ,mDAAmD;gBAC7F,cAAc,kBAAkB,EAAE,CAAC,IAAI,CAAC,IAAI,CAAC,sCAAsC,CACpF,CAAC;QACJ,CAAC;IACH,CAAC;IAED,MAAM,IAAI,GAAG,aAAa,CAAC,QAAQ,CAAC,CAAC;IACrC,MAAM,KAAK,GAAG,WAAW,CAAC,IAAI,CAAC,CAAC,MAAM,CAAC,CAAC,CAAC,EAA4C,EAAE,CAAC,CAAC,CAAC,MAAM,KAAK,IAAI,CAAC,CAAC;IAE3G,MAAM,UAAU,GAAgB,EAAE,CAAC;IAEnC,KAAK,MAAM,IAAI,IAAI,KAAK,EAAE,CAAC;QACzB,MAAM,UAAU,GAAG,WAAW,CAAC,IAAI,CAAC,MAAM,CAAC,CAAC;QAC5C,MAAM,QAAQ,GAAG,IAAI,CAAC,IAAI,CAAC,YAAY,EAAE,UAAU,CAAC,CAAC;QACrD,IAAI,OAAe,CAAC;QACpB,IAAI,CAAC;YACH,OAAO,GAAG,YAAY,CAAC,QAAQ,EAAE,OAAO,CAAC,CAAC;QAC5C,CAAC;QAAC,MAAM,CAAC;YACP,UAAU,CAAC,IAAI,CAAC;gBACd,IAAI,EAAE,OAAO;gBACb,QAAQ;gBACR,IAAI,EAAE,iBAAiB;gBACvB,OAAO,EAAE,wBAAwB,QAAQ,EAAE;aAC5C,CAAC,CAAC;YACH,SAAS;QACX,CAAC;QAED,MAAM,MAAM,GAAG,aAAa,CAAC,QAAQ,EAAE,OAAO,CAAC,CAAC;QAChD,MAAM,cAAc,GAAG,cAAc,CAAC,MAAM,EAAE,IAAI,CAAC,MAAM,EAAE,MAAM,EAAE,IAAI,EAAE,IAAI,CAAC,CAAC;QAE/E,IAAI,OAAO,CAAC,GAAG,IAAI,cAAc,CAAC,IAAI,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,IAAI,KAAK,iBAAiB,CAAC,EAAE,CAAC;YAC1E,MAAM,KAAK,GAAG,QAAQ,CAAC,OAAO,EAAE,MAAM,EAAE,IAAI,CAAC,MAAM,CAAC,CAAC;YACrD,aAAa,CAAC,QAAQ,EAAE,KAAK,EAAE,OAAO,CAAC,CAAC;YACxC,qCAAqC;YACrC,MAAM,QAAQ,GAAG,aAAa,CAAC,QAAQ,EAAE,KAAK,CAAC,CAAC;YAChD,UAAU,CAAC,IAAI,CAAC,GAAG,cAAc,CAAC,QAAQ,EAAE,IAAI,CAAC,MAAM,EAAE,MAAM,EAAE,IAAI,CAAC,CAAC,CAAC;QAC1E,CAAC;aAAM,CAAC;YACN,UAAU,CAAC,IAAI,CAAC,GAAG,cAAc,CAAC,CAAC;QACrC,CAAC;IACH,CAAC;IAED,8BAA8B;IAC9B,UAAU,CAAC,IAAI,CAAC,GAAG,iBAAiB,CAAC,QAAQ,CAAC,CAAC,CAAC;IAEhD,OAAO,UAAU,CAAC;AACpB,CAAC;AAED,SAAS,iBAAiB,CAAC,QAAgB;IACzC,MAAM,UAAU,GAAgB,EAAE,CAAC;IACnC,MAAM,SAAS,GAAG,aAAa,CAAC,QAAQ,CAAC,CAAC;IAE1C,KAAK,MAAM,QAAQ,IAAI,SAAS,EAAE,CAAC;QACjC,IAAI,OAAe,CAAC;QACpB,IAAI,CAAC;YACH,OAAO,GAAG,YAAY,CAAC,QAAQ,EAAE,OAAO,CAAC,CAAC;QAC5C,CAAC;QAAC,MAAM,CAAC;YACP,UAAU,CAAC,IAAI,CAAC,EAAE,IAAI,EAAE,OAAO,EAAE,QAAQ,EAAE,IAAI,EAAE,iBAAiB,EAAE,OAAO,EAAE,0BAA0B,EAAE,CAAC,CAAC;YAC3G,SAAS;QACX,CAAC;QAED,MAAM,MAAM,GAAG,aAAa,CAAC,OAAO,CAAC,CAAC;QACtC,MAAM,aAAa,GAAa,EAAE,CAAC;QACnC,IAAI,CAAC,MAAM,CAAC,IAAI;YAAE,aAAa,CAAC,IAAI,CAAC,MAAM,CAAC,CAAC;QAC7C,IAAI,CAAC,MAAM,CAAC,IAAI;YAAE,aAAa,CAAC,IAAI,CAAC,MAAM,CAAC,CAAC;QAC7C,IAAI,CAAC,MAAM,CAAC,IAAI;YAAE,aAAa,CAAC,IAAI,CAAC,MAAM,CAAC,CAAC;QAE7C,IAAI,aAAa,CAAC,MAAM,GAAG,CAAC,EAAE,CAAC;YAC7B,UAAU,CAAC,IAAI,CAAC;gBACd,IAAI,EAAE,OAAO;gBACb,QAAQ;gBACR,IAAI,EAAE,oBAAoB;gBAC1B,OAAO,EAAE,wCAAwC,aAAa,CAAC,IAAI,CAAC,IAAI,CAAC,6CAA6C;aACvH,CAAC,CAAC;QACL,CAAC;aAAM,IAAI,CAAC,gBAAgB,CAAC,GAAG,CAAC,MAAM,CAAC,IAAK,CAAC,EAAE,CAAC;YAC/C,UAAU,CAAC,IAAI,CAAC;gBACd,IAAI,EAAE,OAAO;gBACb,QAAQ;gBACR,IAAI,EAAE,mBAAmB;gBACzB,OAAO,EAAE,4BAA4B,MAAM,CAAC,IAAI,8CAA8C;aAC/F,CAAC,CAAC;QACL,CAAC;IACH,CAAC;IAED,OAAO,UAAU,CAAC;AACpB,CAAC;AAED,SAAS,QAAQ,CAAC,OAAe,EAAE,MAAwC,EAAE,UAAsB;IACjG,MAAM,YAAY,GAAG,oBAAoB,CAAC,UAAU,CAAC,IAAI,EAAE,CAAC;IAC5D,MAAM,QAAQ,GACZ,UAAU,KAAK,QAAQ,CAAC,CAAC,CAAC,CAAC,cAAc,EAAE,MAAM,EAAE,kBAAkB,EAAE,QAAQ,CAAC,CAAC,CAAC;QAClF,UAAU,KAAK,WAAW,CAAC,CAAC,CAAC,CAAC,OAAO,EAAE,eAAe,EAAE,WAAW,EAAE,gBAAgB,EAAE,QAAQ,CAAC,CAAC,CAAC;YAClG,CAAC,WAAW,EAAE,SAAS,EAAE,OAAO,EAAE,QAAQ,CAAC,CAAC;IAE9C,MAAM,OAAO,GAAG,QAAQ,CAAC,MAAM,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,MAAM,CAAC,QAAQ,CAAC,GAAG,CAAC,CAAC,CAAC,CAAC,CAAC;IAC9D,IAAI,OAA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dist/core/dod-runner.js

@@ -110,3 +110,3 @@ import { existsSync, readFileSync, statSync } from 'fs';
             description: question,
-            correction: question,
+            correction: `check: ${question} — resolve with: taproot dod <impl-path> --resolve "check: ${question}" --note "<your finding>"`,
         };
@@ -113,0 +113,0 @@ }

dist/core/dod-runner.js.map

@@ -1,1 +0,1 @@
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dist/core/dor-runner.js

@@ -158,4 +158,14 @@ import { existsSync, readFileSync } from 'fs';
     const usecasePath = resolveUsecasePath(implMdPath, cwd);
-    // 1. usecase.md exists
+    // 1. usecase.md exists (or link.md as cross-repo substitute)
     if (!existsSync(usecasePath)) {
+        const behaviourDir = dirname(usecasePath);
+        const linkPath = join(behaviourDir, 'link.md');
+        if (existsSync(linkPath)) {
+            // Cross-repo spec: link.md is a valid substitute for usecase.md.
+            // Section/state checks require local usecase.md content — skip them.
+            results.push({ name: 'usecase-exists', passed: true, output: '', correction: '' });
+            const orderingResults = checkImplOrdering(implMdPath, cwd);
+            results.push(...orderingResults);
+            return { results, allPassed: results.every(r => r.passed) };
+        }
         results.push({
@@ -183,3 +193,3 @@ name: 'usecase-exists',
     else {
-        stateCorrection = "Bring the spec to 'specified' (run /tr-review then /tr-refine) before starting implementation";
+        stateCorrection = "Bring the spec to 'specified' (run /tr-audit then /tr-refine) before starting implementation";
     }
@@ -186,0 +196,0 @@ results.push({

dist/core/dor-runner.js.map

@@ -1,1 +0,1 @@
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dist/core/truth-checker.js

@@ -101,3 +101,3 @@ import { createHash } from 'crypto';
 // ─── Session management ────────────────────────────────────────────────────────
-const SESSION_PATH = '.taproot/.truth-check-session';
+const SESSION_PATH = 'taproot/truth-checks.md';
 function computeHash(stagedDocs, truths) {
@@ -135,3 +135,3 @@ const h = createHash('sha256');
             valid: false,
-            reason: 'no truth-check session found — run `taproot truth-sign` and stage `.taproot/.truth-check-session` before committing (or use `taproot commit` to handle this automatically)',
+            reason: 'no truth-check session found — run `taproot truth-sign` and stage `taproot/truth-checks.md` before committing (or use `taproot commit` to handle this automatically)',
         };
@@ -149,3 +149,3 @@ }
             valid: false,
-            reason: 'staged files or truths have changed since the last truth check — run `taproot truth-sign` again and re-stage `.taproot/.truth-check-session`',
+            reason: 'staged files or truths have changed since the last truth check — run `taproot truth-sign` again and re-stage `taproot/truth-checks.md`',
         };
@@ -152,0 +152,0 @@ }

dist/core/truth-checker.js.map

@@ -1,1 +0,1 @@
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docs/agent-internals.md

@@ -21,5 +21,4 @@ # Agent Internals
 ```
-/tr-intent "users need to reset their password without contacting support"
-/tr-review taproot/password-reset/intent.md
-/tr-decompose taproot/password-reset/
+/tr-ineed "users need to reset their password without contacting support"
+/tr-audit taproot/password-reset/intent.md
 /tr-implement taproot/password-reset/request-reset/
@@ -29,7 +28,6 @@ taproot coverage --path taproot/password-reset/
 
-1. **`/tr-intent`** — writes `intent.md` with goal, stakeholders, and success criteria. Asks clarifying questions before writing.
-2. **`/tr-review`** — stress-tests the intent: challenges success criteria, surfaces scope ambiguity, flags missing stakeholders. Run before writing behaviours.
-3. **`/tr-decompose`** — breaks the intent into behaviours (UseCases). For each proposed behaviour the agent asks a probing question to validate it's observable and testable — not just a technical module.
-4. **`/tr-implement`** — for one behaviour at a time: writes the code, writes the tests, creates `impl.md`, and commits using the conventional tag format.
-5. **`taproot coverage`** — shows what's implemented vs. still planned.
+1. **`/tr-ineed`** — routes the requirement: writes `intent.md` with goal, stakeholders, and success criteria, then offers to decompose it into behaviours. Asks clarifying questions before writing.
+2. **`/tr-audit`** — stress-tests the intent: challenges success criteria, surfaces scope ambiguity, flags missing stakeholders. Run before writing behaviours.
+3. **`/tr-implement`** — for one behaviour at a time: writes the code, writes the tests, creates `impl.md`, and commits using the conventional tag format.
+4. **`taproot coverage`** — shows what's implemented vs. still planned.
 
@@ -73,8 +71,4 @@ ---
 
-```
-/tr-analyse-change taproot/password-reset/intent.md
-```
+Before editing a behaviour or intent that already has implementations, the analyse-change skill walks the hierarchy below the artifact and identifies: which implementations would break, which sibling behaviours share preconditions, and what tests would need updating. It is called automatically by `/tr-ineed`, `/tr-refine`, and `/tr-promote` when they detect a potentially breaking change.
 
-Before editing a behaviour or intent that already has implementations, this skill walks the hierarchy below the artifact and identifies: which implementations would break, which sibling behaviours share preconditions, and what tests would need updating.
-
 ---
@@ -90,3 +84,3 @@
 
-Truth discovery also runs as a final pass inside `/tr-review-all`.
+Truth discovery also runs as a final pass inside `/tr-audit-all`.
 
@@ -93,0 +87,0 @@ ---

docs/agents.md

@@ -38,11 +38,9 @@ # Agent Setup
 | `/tr-behaviour` | Define a UseCase under an intent or another behaviour; walks alternate flows and error conditions proactively |
-| `/tr-decompose` | Break an intent into the set of behaviours needed to fulfil it |
 | `/tr-implement` | Implement a behaviour: write code, write tests, create `impl.md`, commit with conventional tag |
 | `/tr-trace` | Navigate the hierarchy in any direction — file to intent (bottom-up), intent to code (top-down), or across siblings |
 | `/tr-status` | Coverage dashboard: shows what's implemented, what's planned, what's stale, and what to do next |
-| `/tr-review` | Stress-test a single artifact — challenges assumptions, identifies gaps, asks adversarial questions |
-| `/tr-review-all` | Comprehensive review of an entire subtree — structural checks, cross-cutting analysis, per-artifact findings |
+| `/tr-audit` | Stress-test a single artifact — challenges assumptions, identifies gaps, asks adversarial questions |
+| `/tr-audit-all` | Comprehensive review of an entire subtree — structural checks, cross-cutting analysis, per-artifact findings |
 | `/tr-refine` | Update a behaviour spec based on post-implementation learnings |
 | `/tr-promote` | Escalate a finding from implementation or behaviour level up to the intent |
-| `/tr-analyse-change` | Impact analysis before editing an existing artifact — identifies downstream breakage and related behaviours |
 | `/tr-next` | Surface the next independently-implementable work item from the hierarchy |
@@ -56,2 +54,3 @@ | `/tr-plan` | Build a persistent implementation plan (`taproot/plan.md`) from backlog items, hierarchy gaps, or explicit items |
 | `/tr-sweep` | Apply a uniform task to a filtered set of hierarchy files — enumerate, confirm, then call `taproot apply` per file |
+| `/tr-link` | Create a cross-repo link file referencing a spec in another repository; guides both linking-repo and source-repo sides of the two-sided workflow |
 
@@ -58,0 +57,0 @@ ### How skills work

docs/architecture.md

@@ -25,5 +25,5 @@ # Architecture
 
-**Unified `taproot/` directory layout** — All taproot content lives under `taproot/`: requirement documents in `taproot/specs/` (or directly under `taproot/` with a custom `root:` setting), agent skills and docs in `taproot/agent/`, and global truths in `taproot/global-truths/`. Settings live at `taproot/settings.yaml`. The `.taproot/` directory is reserved for gitignored runtime scratch only (session state, test result cache, truth-check sessions).
+**Unified `taproot/` directory layout** — All taproot content lives under `taproot/`: requirement documents in `taproot/specs/` (or directly under `taproot/` with a custom `root:` setting), agent skills and docs in `taproot/agent/`, and global truths in `taproot/global-truths/`. Settings live at `taproot/settings.yaml`. The `.taproot/` directory is reserved for gitignored runtime scratch only (session state, test result cache).
 
-**`.taproot/` is runtime scratch, not content** — Files written by CLI invocations that should not be committed (session state, `.truth-check-session`, `.test-results/`) go in `.taproot/`. Add `.taproot/` to `.gitignore`. Never place spec documents, skill files, or configuration there.
+**`.taproot/` is runtime scratch, not content** — Files written by CLI invocations that should not be committed (session state, `.test-results/`) go in `.taproot/`. Add `.taproot/` to `.gitignore`. Never place spec documents, skill files, or configuration there. The truth-check session marker (`taproot/truth-checks.md`) is an exception — it lives in `taproot/` and is committed as an audit trail.
 
@@ -30,0 +30,0 @@ **Markdown is the schema** — All hierarchy documents (intent.md, usecase.md, impl.md) must be valid CommonMark. No proprietary extensions.

docs/cli.md

@@ -123,3 +123,11 @@ # CLI Reference
 - Commits in `## Commits` that are not in git history
+- Cross-repo link files (`link.md`) whose targets cannot be resolved or no longer exist on disk
 
+**Cross-repo link validation** requires `.taproot/repos.yaml` (local, not committed) mapping repo URLs to local filesystem paths:
+```yaml
+"https://github.com/org/platform-repo": "/local/path/to/platform-repo"
+```
+
+Set `TAPROOT_OFFLINE=1` to skip link resolution (useful in CI environments where repos.yaml cannot exist).
+
 Use `--include-unimplemented` to also report behaviours with no implementations (useful for coverage gaps, not just broken links).
@@ -139,2 +147,4 @@
 
+Cross-repo link files (`link.md`) are included in the coverage report with a `[linked]` marker. A linked behaviour counts as implemented when a local `impl.md` in the same folder lists the link file path in `## Source Files` and has state `complete`. Linked behaviours with no such `impl.md` are listed as coverage gaps.
+
 ### `taproot sync-check`
@@ -204,3 +214,3 @@
 
-Orchestrates the full commit sequence in one step: stage all changes (optional), run `taproot truth-sign` if hierarchy files are staged and `taproot/global-truths/` exists, automatically stage `.taproot/.truth-check-session`, then run `git commit`.
+Orchestrates the full commit sequence in one step: stage all changes (optional), run `taproot truth-sign` if hierarchy files are staged and `taproot/global-truths/` exists, automatically stage `taproot/truth-checks.md`, then run `git commit`.
 
@@ -243,3 +253,3 @@ | Option | Effect |
 
-**Truth consistency check:** when hierarchy files are staged and `taproot/global-truths/` exists, the hook validates that a truth-check session marker (`.taproot/.truth-check-session`) is present and matches the current staged content. This marker is written by `taproot truth-sign`, which `taproot commit` calls automatically. Committing hierarchy files directly with `git commit` (bypassing `taproot commit` or a manual `taproot truth-sign` + stage step) will be blocked if applicable truths exist.
+**Truth consistency check:** when hierarchy files are staged and `taproot/global-truths/` exists, the hook validates that a truth-check session marker (`taproot/truth-checks.md`) is present and matches the current staged content. This marker is written by `taproot truth-sign`, which `taproot commit` calls automatically. Committing hierarchy files directly with `git commit` (bypassing `taproot commit` or a manual `taproot truth-sign` + stage step) will be blocked if applicable truths exist.
 
@@ -246,0 +256,0 @@ ---

docs/concepts.md

@@ -13,2 +13,9 @@ # Document Types
 
+> **The Why / What / How rule:** each layer must stay in its lane.
+> - `intent.md` answers *why* — business outcome, stakeholders, success criteria. No solution language.
+> - `usecase.md` answers *what* — observable, actor-visible behaviour. No database queries, no API calls, no HTTP status codes.
+> - `impl.md` answers *how* — code, design decisions, test coverage. Technical detail belongs here and only here.
+>
+> A behaviour spec that mentions SQL, REST, or endpoint is leaking implementation into the contract layer. A developer reading the spec should understand what the system does without needing to know how it is built.
+
 ---
@@ -69,3 +76,3 @@
 - **Preconditions** — what must be true before this can happen
-- **Main Flow** — the steps in the happy path, written as active-voice actions (subject + verb + object)
+- **Main Flow** — the steps in the happy path, written as active-voice actions (subject + verb + object). Steps describe *what* the actor and system do — not *how* internally (no SQL, no HTTP verbs, no service names). "System saves the profile" is correct; "System executes an UPDATE query on the users table" is not.
 - **Alternate Flows** — named variations: what if the user cancels? what if a network call fails?
@@ -248,2 +255,33 @@ - **Postconditions** — what is true after successful completion (these should map to success criteria in the parent intent)
 
+## Vertical Slice
+
+A vertical slice is the minimum set of behaviours an actor needs to reach a specific observable outcome end-to-end. It cuts across the full layer stack — intent → behaviour → implementation — but is intentionally thin: no luxury features, no edge cases, no behaviours that aren't on the critical path.
+
+A slice answers: **"Which behaviours must exist for actor Y to do Z?"**
+
+It may involve one behaviour or several. What makes it a slice is the selection criterion — critical path only — not the count.
+
+```
+Slice: developer can submit a scan and receive findings
+
+Critical-path behaviours:
+  ✓ submit-scan/          ← must exist
+  ✓ dispatch-to-worker/   ← must exist
+  ✓ return-findings/      ← must exist
+
+Deferred (not on this path):
+  ✗ view-scan-history/
+  ✗ cancel-in-progress-scan/
+```
+
+Each behaviour in the slice still follows the normal taproot cycle: spec → impl → commit. The slice defines the *selection and ordering*, not a shortcut through the quality gates.
+
+**When to use a vertical slice**
+
+Use `/tr-plan "<slice description>"` to build a slice plan: the skill derives the actor, entry point, and observable outcome from the description, scans the hierarchy for critical-path behaviours, and produces a sequenced plan of only those items.
+
+Slices are the recommended delivery unit for new features. Starting with a slice produces a working demo earlier, surfaces integration problems sooner, and avoids implementing behaviours that turn out not to be needed.
+
+---
+
 ## Document States
@@ -250,0 +288,0 @@

docs/patterns.md

@@ -24,3 +24,3 @@ # Patterns
 ```
-Run `/tr-decompose` to create sub-behaviours. Set deferred ones to `state: deferred`. Each sub-behaviour has its own DoD gate. `/tr-status` and `/tr-next` surface deferred items for future iterations.
+Use `/tr-ineed` to decompose and create sub-behaviours. Set deferred ones to `state: deferred`. Each sub-behaviour has its own DoD gate. `/tr-status` and `/tr-next` surface deferred items for future iterations.
 
@@ -244,3 +244,3 @@ **Pattern B — AC-scoped impl** (when all ACs share the same flow shape):
 1. The skill performs the semantic check (via the agent) before `git commit` is called
-2. If the check passes, the skill runs `taproot truth-sign` to write a session marker (`.taproot/.truth-check-session`) containing a SHA-256 hash of the checked content
+2. If the check passes, the skill runs `taproot truth-sign` to write a session marker (`taproot/truth-checks.md`) containing a SHA-256 hash of the checked content
 3. The hook validates the marker exists and matches the current staged state — a fast, deterministic check
@@ -354,2 +354,62 @@
 
+## Cross-repo specification sharing
+
+**Problem:** A system spans multiple repositories. Specs that describe shared behaviour live in one repo, but other repos need to implement — and trace — them independently. Duplicating specs creates drift; leaving them only in the source repo means implementing repos have no local coverage record.
+
+**Pattern:** A **link file** in the implementing repo points to the spec in the source repo. A local `impl.md` references the link file as its source — making coverage counting entirely local. The source repo creates a `delegated` impl.md to mark the ACs that another repo handles.
+
+**Variants:**
+- **Main repo with satellites** — one repo owns shared specs and some implementations; satellite repos link to it
+- **Coordination repo** — a requirements-only repo owns all specs; all implementing repos link to it
+- **Shared truths only** — repos don't share specs, just global truths (API contracts, domain models) via `Type: truth` link files
+
+**When to use it:**
+- A behaviour is implemented across multiple repos and you need independent coverage on each side
+- You have a canonical domain model or API contract that must be enforced at commit time in several repos
+
+Full documentation and setup checklist: [docs/cross-repo.md](cross-repo.md)
+
+---
+
+## Cross-repo change handoff
+
+**Problem:** An agent working in repo A identifies that repo B needs a change — a truth update, a spec amendment, an API contract extension. Without a clear convention, the agent either silently proceeds (creating drift) or reaches directly into repo B's files (unauthorized modification with no review or traceability).
+
+**Pattern:** Surface a structured handoff block and stop. The block contains everything the developer needs to act in the other repo — no cross-repo writes by the agent.
+
+```
+Cross-repo change needed
+─────────────────────────────────────────────
+Repo:    https://github.com/org/target-repo
+File:    taproot/global-truths/api-contract_impl.md
+Change:  Add `base_ref` field to the scan submission payload
+Why:     Local implementation now sends base_ref; target contract must document it
+Action:  Run taproot validate-format in the source repo; linking repos re-validate at next commit
+```
+
+**Action field** is derived from the relationship type:
+- Truth link target → `Run taproot validate-format in the source repo; linking repos re-validate at next commit`
+- Behaviour/intent link target → `Update spec and notify linking repos of the change`
+- No formal link → `Open target repo, apply change, verify with target repo maintainer`
+
+**When to trigger:**
+- **Explicit** — developer or agent states directly that a change is needed
+- **Inferred** — agent detects a concrete conflict (e.g. local code now contradicts a linked truth, or a spec change breaks a linked behaviour)
+- **Not speculative** — if uncertain, ask "Is it clear that [repo] needs to change?" before presenting the block
+
+**Blocking vs non-blocking:**
+- If the current task cannot proceed without the upstream change: add `Blocking: yes` to the block and pause the session
+- If non-blocking: present the block then offer to defer to `taproot/backlog.md`
+
+**Autonomous mode:** Capture the block to `taproot/backlog.md` silently; add a `## Notes` entry to the current `impl.md`: "Autonomous session — cross-repo change captured to backlog: [summary]"
+
+**When to use it:**
+- Agent detects a linked truth needs updating to accommodate local changes
+- Agent implements a spec that requires a contract change in a source repo
+- Agent working in a linking repo realises the source repo's spec is stale relative to the implementation
+
+See full spec: `taproot/specs/cross-repo-specification/signal-cross-repo-change/usecase.md`
+
+---
+
 ## What belongs in `taproot/global-truths/`
@@ -356,0 +416,0 @@

docs/workflows.md

@@ -69,9 +69,9 @@ # Workflows
 ```
-/tr-review taproot/password-reset/request-reset/usecase.md
-/tr-review-all taproot/password-reset/
+/tr-audit taproot/password-reset/request-reset/usecase.md
+/tr-audit-all taproot/password-reset/
 ```
 
-Use `/tr-review` to stress-test a single spec before you implement it — the agent challenges assumptions, asks adversarial questions, and flags coverage gaps. Use `/tr-review-all` on a subtree to catch contradictions between siblings and cross-check every intent criterion against the behaviours below it.
+Use `/tr-audit` to stress-test a single spec before you implement it — the agent challenges assumptions, asks adversarial questions, and flags coverage gaps. Use `/tr-audit-all` on a subtree to catch contradictions between siblings and cross-check every intent criterion against the behaviours below it.
 
-Run `/tr-review` on a fresh spec before starting implementation. Run `/tr-review-all` before a release or after significant scope changes.
+Run `/tr-audit` on a fresh spec before starting implementation. Run `/tr-audit-all` before a release or after significant scope changes.
 
@@ -78,0 +78,0 @@ ---

package.json

 {
   "name": "@imix-js/taproot",
-  "version": "0.9.4",
+  "version": "0.9.5",
   "description": "AI-driven specs, enforced at commit time. Code without traceability doesn't merge.",
@@ -5,0 +5,0 @@ "type": "module",

README.md

@@ -116,2 +116,26 @@ # Taproot
 
+## Multi-repo projects
+
+Taproot works across repository boundaries. If your system spans multiple repos — a platform repo plus plugin repos, a coordination repo plus service repos — you can define specs in one place and implement them independently in each repo.
+
+A **link file** in the linking repo points to the spec that lives elsewhere:
+
+```markdown
+# Link: Plugin Login
+
+**Repo:** https://github.com/org/platform-repo
+**Path:** taproot/specs/auth/plugin-login/usecase.md
+**Type:** behaviour
+```
+
+Each repo's `taproot coverage` runs independently. The linking repo counts the behaviour as implemented via its local `impl.md`; the source repo marks it `delegated`. Both stay clean with no duplication.
+
+Shared **global truths** (API contracts, domain models) work the same way — a `truth` link in `taproot/global-truths/` is enforced at commit time, even when the truth file lives in another repo.
+
+Use `/tr-link` to set up either side of the two-sided workflow interactively.
+
+Full documentation: [docs/cross-repo.md](docs/cross-repo.md)
+
+---
+
 ## Docs
@@ -125,2 +149,3 @@
 - [Patterns](docs/patterns.md)
+- [Cross-repo linking](docs/cross-repo.md)
 
@@ -127,0 +152,0 @@ ## License

skills/analyse-change.md

@@ -81,4 +81,4 @@ # Skill: analyse-change
      **What's next?**
-     [A1] `/tr-refine <path>` — apply the change to the behaviour spec
-     [A2] `/tr-intent <path>` — revise the intent if upstream is affected
+     [1] `/tr-refine <path>` — apply the change to the behaviour spec
+     [2] `/tr-intent <path>` — revise the intent if upstream is affected
 
@@ -100,4 +100,3 @@ - **[N] Narrow**: ask "What would you like to change about the proposed delta?" then return to Step 3 with the revised description
 - Conceptual matching (Step 6) is agent reasoning, not a deterministic algorithm — it may miss indirect dependencies or flag false positives. Treat "possibly affected" as a prompt for human review, not a definitive list.
-- This skill is typically called by other skills (`tr-intent` in refine mode, `tr-refine`, `tr-promote`, `tr-ineed` when detecting a change) rather than directly by the user. Direct invocation is also valid.
+- This skill is called internally by other skills (`tr-intent` in refine mode, `tr-refine`, `tr-promote`, `tr-ineed` when detecting a change). It is not distributed as a user-facing `/tr-` command.
 - Concurrent invocations are not protected by any locking mechanism. In parallel agent pipelines, external coordination is required.
-- `/tr-analyse-change` is the Claude Code adapter command name for this skill.

skills/backlog.md

@@ -58,4 +58,4 @@ # Skill: backlog
    **What's next?**
-   [A] `/tr-ineed <idea>` — route a kept item into the hierarchy now
-   [B] `/tr-status` — see current project health
+   [1] `/tr-ineed <idea>` — route a kept item into the hierarchy now
+   [2] `/tr-status` — coverage snapshot
 
@@ -62,0 +62,0 @@ ## Output

skills/behaviour.md

@@ -14,2 +14,4 @@ # Skill: behaviour
 
+0. **Resolve the hierarchy root.** Read `taproot/settings.yaml`. Extract the `root:` value (default: `taproot/specs/`). Verify that `parent` is under this root — if not, warn: "The parent path `<parent>` is outside the configured hierarchy root (`<root>`). Did you mean `<root>/<relative-path>`?" and wait for confirmation before proceeding.
+
 1. Read the parent artifact at `parent`:
@@ -125,5 +127,5 @@ - If `parent` contains `intent.md`: read the intent to understand the goal and success criteria.
    **What's next?**
-   [A] `/tr-implement taproot/<parent>/<slug>/` — start building
-   [B] `/tr-review taproot/<parent>/<slug>/usecase.md` — stress-test the spec first
-   [C] `/tr-browse taproot/<parent>/<slug>/` — browse related behaviours and specs for context
+   [1] `/tr-implement taproot/<parent>/<slug>/` — start building
+   [2] `/tr-audit taproot/<parent>/<slug>/usecase.md` — stress-test the spec first
+   [3] `/tr-browse taproot/<parent>/<slug>/` — browse related behaviours and specs for context
 
@@ -204,3 +206,4 @@ ## Output
 - The Mermaid diagram is the human-readable contract — it should be understandable by a non-technical stakeholder. Prefer `sequenceDiagram` for flows with clear actor–system turns; use `flowchart TD` for decision-heavy branching.
+- **What, not how.** Main flow steps must describe observable behaviour — what the actor sees or what the system produces — not the internal mechanism. "System saves the profile" is correct; "System executes an UPDATE query on the users table" is not. SQL, REST, HTTP verbs, endpoint names, and service internals belong in `impl.md`. The pre-commit hook flags implementation terms in the main flow.
 - Error conditions should be specific: name the exact actor-visible trigger and the exact system response (error message shown, state preserved, retry offered). Vague conditions ("request fails") are not acceptable. Technical triggers (HTTP 5xx, duplicate key, token limit) belong in `impl.md` — translate them to actor-visible language in the spec (e.g. "service is unavailable", "an item with that name already exists", "request is too large").
-- Related behaviours are not just cross-references — they define the dependency graph that `/tr-analyse-change` uses for impact analysis.
+- Related behaviours are not just cross-references — they define the dependency graph used by the analyse-change skill for impact analysis.

skills/browse.md

@@ -5,3 +5,3 @@ # Skill: browse
 
-Read a taproot hierarchy document section by section in the terminal — without opening an external editor. Presents each section one at a time, offers inline editing via `[M] Modify`, and lists what's below at the end. Distinct from `/tr-review` (which is an agent-driven critique); browse is the developer reading the spec themselves.
+Read a taproot hierarchy document section by section in the terminal — without opening an external editor. Presents each section one at a time, offers inline editing via `[M] Modify`, and lists what's below at the end. Distinct from `/tr-audit` (which is an agent-driven critique); browse is the developer reading the spec themselves.
 
@@ -68,5 +68,5 @@ ## Inputs
    **What's next?**
-   [A] `/tr-browse <child-path>` — go deeper into one of the listed children
-   [B] `/tr-implement <path>/` — start building (if browsing a behaviour spec)
-   [C] `/tr-review <path>` — get an agent critique of the spec
+   [1] `/tr-browse <child-path>` — go deeper into one of the listed children
+   [2] `/tr-implement <path>/` — start building (if browsing a behaviour spec)
+   [3] `/tr-audit <path>` — get an agent critique of the spec
 
@@ -83,5 +83,5 @@ ## Output
 
-- Browse is read-and-light-edit, not a stress-test. Resist the urge to comment on spec quality — the developer is reading, not asking for a critique. Use `/tr-review` for that.
+- Browse is read-and-light-edit, not a stress-test. Resist the urge to comment on spec quality — the developer is reading, not asking for a critique. Use `/tr-audit` for that.
 - The ~20-line pagination threshold is a guideline. Use judgment — a section with 22 short lines may be fine to show in full; a section with 15 very long lines may need pagination.
 - The `> How we got here:` block is shown once per browse session at the designated anchor, not repeated for every section.
 - After [M] edits, the file on disk is updated but no git staging is performed — the developer commits when ready.

skills/bug.md

@@ -16,3 +16,5 @@ # Skill: bug
 
-2. **Confirm reproducibility.** Ask the actor: "Can you reproduce this consistently? If so, what are the minimal steps?" If the actor cannot reproduce it after clarification (environment details, inputs, frequency, logs), suspend with: "Cannot confirm reproduction — add a failing test case and re-run `/tr-bug` once it's consistent." Stop.
+2. **Confirm reproducibility — only when needed.** Assess the symptom description:
+   - **Self-evident** (wrong output visible, crash message shown, specific incorrect value): skip reproduction confirmation entirely — the symptom is already confirmed. Proceed to step 3.
+   - **Ambiguous** (intermittent, environment-specific, "sometimes", no clear trigger): ask: "Can you reproduce this consistently? What are the minimal steps?" If the actor cannot reproduce it after clarification (environment details, inputs, frequency, logs), suspend with: "Cannot confirm reproduction — add a failing test case and re-run `/tr-bug` once it's consistent." Stop.
 
@@ -19,0 +21,0 @@ 3. **5-Why root cause dialogue.** Ask one "Why?" at a time, building on each answer:

skills/commit.md

@@ -63,4 +63,5 @@ # Skill: commit
       3. Compare: are the docs accurate and current relative to what was just implemented?
+      3a. Ask: *"Does this implementation introduce a new user-facing feature, concept, or workflow large enough to warrant a new `docs/` file?"* If yes — propose the file name and outline, create it, add a link from `README.md` and `docs/patterns.md` if relevant, then resolve. If no — continue.
       4. If stale sections are found: apply updates directly, then resolve
-      5. If docs are current: resolve with a note describing what you read and why no update is needed
+      5. If docs are current and no new doc is needed: resolve with a note describing what you read and why no update is needed
 
@@ -71,2 +72,3 @@ **Prohibited resolutions for `document-current`:**
       - "no related backlog items → no doc update needed"
+      - "existing docs are accurate → no new doc needed" (without first asking whether a new doc is warranted)
       - Any resolution that does not involve reading `docs/` content and comparing it to the git diff
@@ -89,2 +91,4 @@
 
+      **If the truth file is a cross-repo link** (e.g. `global-truths/*-link.md`): option [B] cannot be done locally. Surface a cross-repo handoff instead — see the **Cross-repo change handoff** pattern in `taproot/agent/docs/patterns.md`.
+
       **Interactive mode:** Wait for the developer's choice. Do not proceed to step 5 until resolved.
@@ -172,9 +176,8 @@
 7. Offer contextual What's next options based on the commit type:
-   - **[A] Continue plan** — only if `taproot/plan.md` exists and contains `pending` items: invoke `/tr-plan-execute`
-   - **[B] Implement next** — only for requirement or declaration commits: prompt `Which behaviour should I implement next?` then invoke `/tr-implement <path>`
-   - **[C] Check backlog** — open `taproot/backlog.md` to review deferred ideas and captured findings
-   - **[D] Check coverage** — `/tr-status` to review hierarchy health
-   - **[E] Done** — no further action
+   - **[1] Continue plan** — only if `taproot/plan.md` exists and contains `pending` items: invoke `/tr-plan-execute`
+   - **[2] Implement next** — only for requirement or declaration commits: prompt `Which behaviour should I implement next?` then invoke `/tr-implement <path>`
+   - **[3] Check backlog** — open `taproot/backlog.md` to review deferred ideas and captured findings
+   - **[4] Check coverage** — `/tr-status` coverage snapshot
 
-   Omit [A] if no plan exists or no pending items remain. Omit [B] after implementation and plain commits. Developer may ignore the prompt silently.
+   Omit [1] if no plan exists or no pending items remain. Omit [2] after implementation and plain commits. Developer may ignore the prompt silently.
 
@@ -181,0 +184,0 @@ ## Output

skills/decompose.md

@@ -85,4 +85,4 @@ # Skill: decompose
     **What's next?**
-    [A] `/tr-implement taproot/<intent-slug>/<first-behaviour-slug>/` — start building the first behaviour
-    [B] `/tr-review taproot/<intent-slug>/<behaviour-slug>/usecase.md` — stress-test a behaviour spec first
+    [1] `/tr-implement taproot/<intent-slug>/<first-behaviour-slug>/` — start building the first behaviour
+    [2] `/tr-audit taproot/<intent-slug>/<behaviour-slug>/usecase.md` — stress-test a behaviour spec first
 
@@ -89,0 +89,0 @@ ## Output

skills/define-truth.md

@@ -5,3 +5,3 @@ # Skill: define-truth
 
-Create or update a truth entry in `taproot/global-truths/` — a fact, business rule, glossary term, or convention that applies across the project. Accepts a pre-populated candidate from `/tr-discover-truths` or runs interactively.
+Create or update a free-form truth entry in `taproot/global-truths/` — a fact, rule, term, convention, or decision that applies across the project. Accepts a pre-populated candidate from `/tr-discover-truths` or runs interactively.
 
@@ -11,2 +11,3 @@ ## Inputs
 - `candidate` (optional): Pre-populated context from `/tr-discover-truths` or `/tr-ineed` — includes term/rule, proposed scope, and evidence. If omitted, the skill asks interactively.
+- `entry` (optional): Pre-drafted structured content assembled by a calling skill — a complete ADR, principle, convention, or external constraint already formatted and ready to write. If provided, all elicitation phases are skipped; the skill displays the draft and asks for confirmation only.
 
@@ -21,4 +22,4 @@ ## Steps
    a. Read the `## What belongs in taproot/global-truths/` section from `.taproot/docs/patterns.md` (create the file with that section if it does not exist — see alternate flow in `guide-truth-capture/usecase.md`).
-   b. Present the five truth type categories (glossary, domain model, architecture decisions, naming conventions, business rules) with their default scopes and one-line descriptions.
-   c. Ask: "Which of these apply to your project right now? (You can always add more later.) Select all that apply, or press Enter to skip and define a truth directly."
+   b. Say: "Truth files are free-form — anything worth knowing across the project (prose, tables, bullet lists, any markdown). Common starting points: **glossary** (canonical terms), **domain model** (entity shapes), **architecture decisions**, **naming conventions**, **business rules**. You can also define any other type directly."
+   c. Ask: "Which of these would you like to scaffold now? Enter names or numbers (e.g. 1 3), type your own category name, or press Enter to skip straight to defining a truth."
    d. For each selected category: note it as a pending file to create. After Phase 3 and 4 (scope and file naming), create a blank scoped file per category using the category name as the filename. Report each file created.
@@ -31,2 +32,14 @@ e. If the developer skips (presses Enter): proceed directly to Phase 1 as normal.
 
+0. **Entry handoff (skip elicitation).** If `entry` was provided by a calling skill:
+   - Display the drafted content:
+     ```
+     Here's what I've captured — does this look right?
+
+     <entry content>
+     ```
+   - Present: `[A] Write it · [E] Edit · [C] Cancel`
+   - **[A]**: proceed directly to Phase 5 (Write) with the entry as content. Use the structured format's scope and file defaults unless the entry specifies otherwise.
+   - **[E]**: apply the developer's corrections, re-display, and repeat until `[A]` or `[C]`.
+   - **[C]**: stop. Do not write anything.
+
 1. If `candidate` was provided, display it:
@@ -45,43 +58,130 @@ ```
 
-2. Confirm the truth content — the actual text to write into the file. Ask if not already clear:
-   > "How would you like to phrase this truth? (Free-form markdown — prose, table, bullet list, or heading are all valid.)"
+2. **Classify for structured format.** After receiving the description, assess whether it fits one of four structured formats:
+   - Sounds like a choice the team made between options (architecture, tooling, security approach) → **Decision** (ADR)
+   - Sounds like a design value guiding ongoing choices (UX philosophy, performance stance) → **Principle**
+   - Sounds like a specific do/don't rule with right/wrong examples (naming, coding style) → **Convention**
+   - Sounds like an externally imposed requirement (regulator, client contract, legacy system) → **External constraint**
 
-### Phase 2 — Determine Scope
+   If it matches one: "That sounds like a [Decision / Principle / Convention / External constraint] — I can use a structured format for richer capture. [Y] Use structured format · [N] Free-form"
 
-3. If scope is not already confirmed, ask:
-   > "What scope should this truth have?
-   > - **intent** — applies to intent, behaviour, and implementation levels (broadest)
-   > - **behaviour** — applies to behaviour and implementation levels
-   > - **impl** — applies to implementation level only (narrowest)"
+   - **[Y]**: follow the **Structured path** section below, then skip to Phase 5 (Write).
+   - **[N]** or no clear match: continue to step 3 (free-form path).
 
-   Wait for the developer's choice.
+3. Confirm the truth content — the actual text to write into the file.
 
-### Phase 3 — Name the File
+   **If `candidate` was provided** (pre-populated from discover-truths): always ask before drafting:
+   > "[S] One sentence — just the rule  ·  [L] Longer — add rationale or examples"
+   - **[S]**: draft a single sentence that states the rule, present it, ask "Does this work?"
+   - **[L]**: ask "What should I include?" then draft; present and ask "Does this work?"
+   - The developer may also just type the text they want directly — use it verbatim.
 
-4. Propose a category-level name for the file — one that can hold multiple related truths, not the specific term being captured now:
+   **If no candidate** (interactive): ask:
+   > "How would you like to phrase this truth? (One sentence is fine — anything from a single rule statement to a longer explanation.)"
 
-   > "What should the file be called? Pick a category name so related truths can live together:
-   >
-   > Suggested names by scope:
-   > - **intent**: `glossary` · `principles` · `ux-principles` · `domain-model` · `system-context`
-   > - **behaviour**: `principles` · `guarantees` · `rules`
-   > - **impl**: `architecture` · `tech-choices` · `patterns`
-   >
-   > (Or enter your own name — keep it generic enough to hold future truths of the same kind.)"
+---
 
-   If a file with that name already exists at the target path, note it:
-   > "A file `<name>_<scope>.md` already exists — I'll append to it rather than create a new one."
+### Structured path
 
-### Phase 4 — Choose Convention
+Use when the developer confirms a structured format in step 2.
 
-5. Ask which storage convention to use:
-   > "Which convention do you prefer?
-   > - **[S] Suffix** — `<name>_<scope>.md` in `taproot/global-truths/` (e.g. `glossary_intent.md`)
-   > - **[F] Sub-folder** — `<scope>/<name>.md` in `taproot/global-truths/` (e.g. `intent/glossary.md`)
-   >
-   > Both are valid. Use suffix if you have few truths; sub-folder if you expect many."
+**[D] Decision — ADR format:**
+a. Check early: "Was this imposed on you, or did your team choose it? If it was imposed, this may be better captured as an External constraint."
+b. Ask: "Describe the situation — what problem or context prompted this decision?"
+c. Ask: "What options did you consider? For each, what was the key trade-off?"
+d. Ask: "Which option did you choose, and why?"
+e. Ask: "What consequences follow — benefits you expect and trade-offs you accept?"
+f. If undecided: record as open — Status: open with context and options listed; note "Recorded as open — will not constrain specs until resolved."
+g. Scope default: **impl** (technology choices) — ask if different scope needed
+h. File default: `architecture_impl.md` — ask if domain warrants a different name (e.g. `security_impl.md`)
+i. Format:
+   ```
+   ## [Decision title]
 
-   If the project already has truth files using one convention, note it:
-   > "Your project currently uses the <suffix|sub-folder> convention — using it here keeps things consistent."
+   **Status:** decided | open
+   **Context:** [situation]
+   **Options considered:**
+   - [Option A]: [trade-off]
+   - [Option B]: [trade-off]
+   **Decision:** [chosen option and why]
+   **Consequences:** [expected benefits and accepted trade-offs]
+   ```
 
+**[P] Principle — Principle format:**
+a. Ask: "Name this principle in 3–5 words."
+b. Ask: "What is the rationale — why does this principle exist in your project?"
+c. Ask: "Give an example of applying this principle correctly."
+d. Ask: "Give an example of violating this principle." If unavailable, proceed and note: "A violation example would make this principle more testable — consider adding one later."
+e. Scope default: **intent** (cross-cutting values)
+f. File default: `principles_intent.md` — or domain-specific (e.g. `ux-principles_intent.md`)
+g. Format:
+   ```
+   ## [Principle name]
+
+   **Rationale:** [why this principle exists]
+   **Correct:** [example of following it]
+   **Violation:** [example of ignoring it] (if provided)
+   ```
+
+**[R] Convention — Rule format:**
+a. Ask: "Describe the rule — what must always (or never) be done?"
+b. Ask: "Give a correct example."
+c. Ask: "Give an incorrect example."
+d. Ask: "Is there a rationale worth recording?" (optional)
+e. Ask: "Are there known exceptions?" If yes, describe them.
+f. If too broad to produce a clear example, ask: "Can you make this more specific — what would a developer do differently by following this rule?"
+g. Scope default: **impl** (coding conventions)
+h. File default: `conventions_impl.md` — or domain-specific (e.g. `naming_intent.md`)
+i. Format:
+   ```
+   ## [Convention name]
+
+   **Rule:** [rule statement]
+   **Correct:** [example]
+   **Incorrect:** [example]
+   **Rationale:** [why this rule exists] (if provided)
+   **Exceptions:** [known exceptions] (if any)
+   ```
+
+**[E] External constraint — External format:**
+a. Ask: "Describe the constraint — what are you required to do, use, or avoid?"
+b. Check: "Was this imposed on you, or did your team choose it? If your team chose it, this is better captured as a Decision." Redirect if confirmed.
+c. Ask: "Who or what imposed this? (e.g. client contract, regulator, platform, legacy system)"
+d. Ask: "What are the implications for the project?"
+e. Ask: "Is there an expiry or review date?" (optional)
+f. Ask: "Is there a known workaround or mitigation?" (optional)
+g. Scope default: **intent** (project-wide impositions)
+h. File default: `external-constraints_intent.md` — or domain-specific (e.g. `regulatory_intent.md`)
+i. Format:
+   ```
+   ## [Constraint title]
+
+   **Source:** [who or what imposed this]
+   **Constraint:** [what is required or forbidden]
+   **Implications:** [what this means for the project]
+   **Expiry/Review:** [date or condition, if known]
+   **Workaround:** [mitigation, if any]
+   ```
+
+After writing a structured entry, ask: "Another structured truth, or done?" If another: return to step 2.
+
+**Completeness check** — after ending a structured session covering 2 or more entries, briefly note any of the four formats not yet captured: "You've added [formats]. You haven't captured [remaining formats] — worth recording those now?"
+
+---
+
+### Phase 2 — Scope, File, and Convention (free-form path only)
+
+3. Determine scope, file name, and storage convention. **Collapse into a single confirmation when possible:**
+
+   - **Scope**: if `candidate` proposed a scope, use it without asking. Otherwise ask:
+     > "Scope: **intent** (broadest — all levels) · **behaviour** · **impl** (narrowest)?"
+
+   - **File name**: check `taproot/global-truths/` for existing files. If a file already exists whose name fits this truth (e.g. `architecture_intent.md` for an architecture principle), use it — just note "I'll append to `<name>`." Don't ask. If no obvious match, suggest one category-level name:
+     > "I'll put this in `<suggested-name>_<scope>.md` — ok, or different name?"
+
+   - **Convention**: if the project already uses one convention (suffix or sub-folder), match it silently. If no files exist yet, default to suffix and note the choice; only ask if the developer seems likely to care.
+     - Suffix example: `taproot/global-truths/glossary_intent.md`
+     - Sub-folder example: `taproot/global-truths/intent/glossary.md`
+
+   The goal is zero questions when context is clear. Ask only what's genuinely ambiguous.
+
 ### Phase 5 — Write the File
@@ -95,6 +195,8 @@
 
-7. If the file already exists, read it and present:
-   > "A truth file already exists at `<path>`. Here's the current content: [excerpt]. Do you want to [A] append to it, [B] replace it, or [C] cancel?"
+7. If the file already exists, read it and check for contradictions first. If the new entry appears to contradict an existing entry, flag it:
+   > "This appears to contradict an existing entry: [excerpt]. [A] Update the existing entry · [B] Record both with a distinction note · [C] Cancel"
    Wait for the developer's choice.
 
+   Then present the existing content and ask: "[A] Append · [B] Replace · [C] Cancel"
+
 8. Write the truth file with the confirmed content. Report:
@@ -112,5 +214,6 @@ > "✓ Written: `<path>` (scope: <scope>)"
 **What's next?**
-[A] `/tr-discover-truths` — scan the hierarchy for more truth candidates
-[B] `/tr-commit` — commit the new truth file
-[C] Define another truth — run `/tr-define-truth` again
+[1] `/tr-discover-truths` — scan the hierarchy for more truth candidates
+[2] `/tr-commit` — commit the new truth file
+[3] Define another truth — run `/tr-define-truth` again
+[4] `/tr-sweep` — apply this truth across relevant project files (source, docs, specs, security, etc.)
 
@@ -128,3 +231,3 @@ ## Output
 
-- Truth content is free-form — no schema is enforced. The developer chooses prose, tables, bullet lists, or headings.
+- Truth content is free-form — no schema is enforced. The developer chooses prose, tables, bullet lists, or headings. **A single sentence is sufficient for enforcement** — the truth-check hook reads the file verbatim and checks staged changes for consistency. Longer explanations help future readers but are not required for the hook to work.
 - Both conventions (suffix and sub-folder) may coexist in the same project. Neither is preferred.
@@ -134,1 +237,3 @@ - Scope resolution precedence: sub-folder takes precedence over suffix when they conflict (most restrictive wins).
 - When invoked from `/tr-discover-truths`, the `candidate` argument pre-populates steps 1–3, making the interaction faster.
+- Structured formats and their scope defaults: Decisions → `impl`; Principles → `intent`; Conventions → `impl`; External constraints → `intent`.
+- Structured format authoring was originally a separate skill (`/tr-design-constraints`). It was absorbed here so developers invoke one command regardless of truth type. See the originating spec: `taproot/specs/global-truth-store/author-design-constraints/usecase.md`.

skills/discover-truths.md

@@ -5,3 +5,3 @@ # Skill: discover-truths
 
-Scan the taproot hierarchy for implicit facts — recurring terms, business rules, and conventions — that are not yet captured as global truths. Present candidates to the developer for promotion, backlogging, or dismissal. Invoke standalone or as a final pass within `/tr-review-all`.
+Scan the taproot hierarchy for implicit facts — recurring terms, business rules, and conventions — that are not yet captured as global truths. Present candidates to the developer for promotion, backlogging, or dismissal. Invoke standalone or as a final pass within `/tr-audit-all`.
 
@@ -124,5 +124,5 @@ ## Inputs
    **What's next?**
-   [A] `/tr-ineed <candidate>` — promote a kept candidate now
-   [B] `/tr-status` — see current project health
-   [C] `/tr-review-all` — run a full review (includes another truth discovery pass)
+   [1] `/tr-ineed <candidate>` — promote a kept candidate now
+   [2] `/tr-status` — coverage snapshot
+   [3] `/tr-audit-all` — spec quality audit (includes another truth discovery pass)
 
@@ -129,0 +129,0 @@ ## Output

skills/discover.md

@@ -177,6 +177,6 @@ # Skill: discover
 
-       [Y] Write it   [E] Edit before writing   [S] Skip   [Q] Quit session
+       [Y] Write it   [E] Edit before writing   [S] Skip   [C] Cancel
        ```
 
-       Apply Y/E/S/Q as described in step 8e above.
+       Apply Y/E/S/C as described in step 8e above.
 
@@ -215,6 +215,6 @@ f. Update status file: mark this behaviour `[x]` under its intent in Phase 3, update Last updated.
 
-       [Y] Write it   [E] Edit before writing   [S] Skip   [Q] Quit session
+       [Y] Write it   [E] Edit before writing   [S] Skip   [C] Cancel
        ```
 
-       Apply Y/E/S/Q as described in step 8e above.
+       Apply Y/E/S/C as described in step 8e above.
 
@@ -245,5 +245,5 @@ g. Update status file: mark this impl `[x]` under its behaviour in Phase 4, update Last updated.
     **What's next?**
-    [A] `/tr-status` — see coverage gaps and health report
-    [B] `/tr-next` — surface the next behaviour to implement
-    [C] `/tr-ineed` — capture requirements that surfaced during discovery but weren't formalised
+    [1] `/tr-status` — coverage snapshot
+    [2] `/tr-next` — surface the next behaviour to implement
+    [3] `/tr-ineed` — capture requirements that surfaced during discovery but weren't formalised
 
@@ -250,0 +250,0 @@ ## Output

skills/grill-me.md

@@ -47,5 +47,5 @@ # Skill: grill-me
    **What's next?**
-   [A] `/tr-ineed "<clarified requirement>"` — route the sharpened requirement into the hierarchy
-   [B] `/tr-behaviour <path>/` — write the spec now that the design is clear
-   [C] `/tr-backlog <deferred question>` — capture an unresolved question for later without routing it now
+   [1] `/tr-ineed "<clarified requirement>"` — route the sharpened requirement into the hierarchy
+   [2] `/tr-behaviour <path>/` — write the spec now that the design is clear
+   [3] `/tr-backlog <deferred question>` — capture an unresolved question for later without routing it now
 
@@ -66,3 +66,3 @@ ## Output
 - **Explore the codebase proactively.** Many questions about existing behaviour, architecture, or conventions can be answered by reading files — do this instead of asking.
-- **Distinction from `/taproot:review`** (formerly `tr-grill`): `tr-review` stress-tests a finished taproot artefact from an adversarial reviewer's perspective. `tr-grill-me` interviews the developer *before* the artefact is written, to sharpen the thinking that goes into it.
+- **Distinction from `/taproot:audit`** (formerly `tr-grill`): `/tr-audit` stress-tests a finished taproot artefact from an adversarial reviewer's perspective. `tr-grill-me` interviews the developer *before* the artefact is written, to sharpen the thinking that goes into it.
 - **Called by other skills:** `/taproot:ineed` delegates to `grill-me` on the "Go deeper [A]" path. When called in embedded mode, output the synthesis summary to the calling skill context rather than presenting it to the user.

skills/guide.md

@@ -53,11 +53,10 @@ # Skill: guide
 | `/tr-behaviour` | Define use cases under an intent or another behaviour |
-| `/tr-decompose` | Break an intent into multiple behaviours |
 | `/tr-implement` | Implement a behaviour with code, tests, and `impl.md` |
 | `/tr-trace` | Navigate the hierarchy in any direction — file to intent (bottom-up), intent to code (top-down), lateral across siblings |
 | `/tr-status` | Generate a health dashboard for the hierarchy |
-| `/tr-review` | Stress-test a spec with adversarial questions |
-| `/tr-review-all` | Run review across an entire subtree |
+| `/tr-audit` | Stress-test a spec with adversarial questions |
+| `/tr-audit-all` | Audit an entire subtree — structural checks, cross-cutting analysis, per-artifact findings |
 | `/tr-discover-truths` | Scan the hierarchy for implicit facts and promote them to global truths |
-| `/tr-define-truth` | Create or update a truth entry in `taproot/global-truths/` (free-form) |
-| `/tr-design-constraints` | Capture architectural decisions (ADR), design principles, conventions, or external constraints in structured format |
+| `/tr-define-truth` | Capture any truth — free-form or structured (architecture decisions, principles, conventions, external constraints) |
+| `/tr-design-constraints` | Guided session for structured design constraints — decisions (ADR), principles, conventions, and external constraints |
 | `/tr-browse` | Read a hierarchy document section by section in the terminal — with inline editing via `[M] Modify` |
@@ -72,2 +71,3 @@ | `/tr-backlog` | Capture an idea or finding instantly mid-session; called with no args opens triage to discard, keep, or promote items |
 | `/tr-sweep` | Apply a uniform task to a filtered set of hierarchy files — enumerate, confirm, then call `taproot apply` |
+| `/tr-link` | Create a cross-repo link file (`link.md`) referencing a spec in another repository |
 | `/tr-commit` | Execute the full commit procedure: classify type, run proactive gates, resolve DoD/DoR conditions, stage, and commit |
@@ -115,5 +115,5 @@ | `/tr-refine` | Update a behaviour spec based on implementation learnings |
    **What's next?**
-   [A] `/tr-ineed` — capture your first (or next) requirement
-   [B] `/tr-status` — see the current project health at a glance
-   [C] `/tr-backlog` — triage captured ideas (only if `taproot/backlog.md` is non-empty)
+   [1] `/tr-ineed` — capture your first (or next) requirement
+   [2] `/tr-status` — see the current project health at a glance
+   [3] `/tr-backlog` — triage captured ideas (only if `taproot/backlog.md` is non-empty)
 
@@ -128,2 +128,18 @@ ## Output
 
+## Natural Language Triggers
+
+Invoke the matching skill whenever the developer uses these phrases — even without a slash command:
+
+| Phrase(s) | Invoke |
+|---|---|
+| "commit", "let's commit", "commit that", "commit this" | `/tr-commit` |
+| "create a plan", "make a plan", "plan this", "plan this out", "build a plan" | `/tr-plan` |
+| "what's next", "what should I work on", "next item" | `/tr-next` |
+| "add to backlog", "capture this", "log this idea" | `/tr-backlog` |
+| "I need", "we need", "the system should", "we also need" | `/tr-ineed` |
+| "it's broken", "wrong output", "this crashes", "not working", "regression" | `/tr-bug` |
+| "research", "look into", "investigate", "find out about", "explore" | `/tr-research` |
+
+These triggers apply regardless of which agent is running. Do not use a built-in tool (e.g. the agent's native Plan tool) when a taproot skill covers the intent.
+
 ## Notes
@@ -130,0 +146,0 @@

skills/implement.md

@@ -39,2 +39,3 @@ # Skill: implement
    - **Enforcement note:** These truths are automatically enforced at commit time by the commithook. A contradiction left unresolved here will block the commit when `/tr-commit` runs. Resolve conflicts now rather than at commit time.
+   - **Cross-repo truth conflict:** If the conflict can only be resolved by changing a truth file in another repo (e.g. a linked truth via `global-truths/*-link.md`), surface a cross-repo handoff instead of blocking — see the **Cross-repo change handoff** pattern in `taproot/agent/docs/patterns.md`.
 
@@ -150,5 +151,10 @@ 4. **Pattern check + plan mode.** Before proposing the plan: if `taproot/agent/docs/patterns.md` exists, scan the behaviour description and any design notes for semantic matches. Match signals:
 
+   **If a natural next slice is apparent** (e.g. the just-implemented behaviour unblocks an obvious next step), surface it as option [1] with a concrete description:
+   > [1] `/tr-plan "<one-line slice description>"` — plan next slice
+
+   Pass the description as an argument so `/tr-plan` can derive Actor/Entry/Outcome without re-asking.
+
    **What's next?**
    [A] `/tr-next` — surface the next implementable behaviour
-   [B] `/tr-status` — see full project health after this implementation
+   [B] `/tr-status` — coverage snapshot
 
@@ -155,0 +161,0 @@ ## Output

skills/ineed.md

@@ -20,3 +20,3 @@ # Skill: ineed
 
-   Additional signals — route to `/tr-design-constraints` instead of `/tr-define-truth` when:
+   Additional signals that suggest a structured format (Decision/Principle/Convention/External):
    - "define our architecture / record our tech choices / document our decisions"
@@ -28,10 +28,8 @@ - "UX guidelines / design principles / accessibility principles / sustainability goals"
    If a global truth signal is present, **interrupt before proceeding**:
-   > "That sounds like a **global truth** — a design principle to capture in `taproot/global-truths/`, not a feature to build. Should I route it there, or is this something that should actively enforce on every implementation via a DoD gate?
-   > **[A]** Global truth (free-form) → route to `/tr-define-truth`
-   > **[A2]** Structured constraint (architecture/UX/conventions/external) → route to `/tr-design-constraints`
+   > "That sounds like a **global truth** — a principle to capture in `taproot/global-truths/`, not a feature to build. Should I route it there, or is this something that should actively enforce on every implementation via a DoD gate?
+   > **[A]** Global truth → route to `/tr-define-truth`
    > **[B]** Enforcement gate → apply `check-if-affected-by` pattern
    > **[C]** New requirement → continue with normal routing"
 
-   - **[A]**: call `/tr-define-truth` with the principle. Stop — do not continue routing.
-   - **[A2]**: call `/tr-design-constraints`. Stop — do not continue routing.
+   - **[A]**: If the description clearly fits a structured format (Decision/Principle/Convention/External), route to `/tr-design-constraints` — it guides the developer through the right prompts for each constraint type. If no structured format fits (free-form truth: schema, glossary, domain model), call `/tr-define-truth` directly. Stop — do not continue routing.
    - **[B]**: proceed to pattern check below.
@@ -118,2 +116,7 @@ - **[C]** or no global truth signal: proceed to pattern check below.
 
+   **If [C] — deferred items present:** If **Out of scope** listed any deferred items, offer before continuing:
+   > "You've named [N] deferred item(s). Add them to `taproot/backlog.md` now?
+   > **[B]** Yes, capture to backlog · **[S]** Skip"
+   If [B]: call `/tr-backlog` for each deferred item, then continue to placement.
+
 4a. **Scope-split check** — Before searching for placement, check whether the requirement (or synthesised description) spans multiple distinct business goals. Signals:
@@ -133,7 +136,10 @@ - No hierarchy exists yet and the description covers a whole product or system
    > **[A]** Route each separately — I'll call `/tr-ineed` for each in sequence
-   > **[B]** Decompose — `/tr-decompose` to write a top-level intent and enumerate child behaviours
+   > **[B]** Decompose — write a top-level intent and enumerate child behaviours
    > **[C]** Treat as one intent — I'll note the scope risk in Constraints"
 
-   - **[A]**: invoke `/tr-ineed` for each goal sequentially, waiting for placement confirmation before the next
-   - **[B]**: call `/tr-decompose` with the full description
+   - **[A]**: invoke `/tr-ineed` for each goal sequentially, waiting for placement confirmation before the next. After all intents are placed, offer:
+     > "All [N] intents are in the hierarchy. Build a first `taproot/plan.md` from them?
+     > **[P]** Yes, build plan · **[S]** Skip"
+     If [P]: call `/tr-plan` with the explicit intent list as source. Stop after the plan is written.
+   - **[B]**: invoke the decompose skill with the full description — write a top-level intent then enumerate child behaviours
    - **[C]**: proceed to step 4, adding a Constraints note: "Scope risk: this intent may cover multiple independent business goals — consider splitting if it grows beyond 3–4 behaviours"
@@ -140,0 +146,0 @@

skills/intent.md

@@ -16,2 +16,4 @@ # Skill: intent
 
+0. **Resolve the hierarchy root.** Read `taproot/settings.yaml`. Extract the `root:` value (default: `taproot/specs/`). Use this as the base path for all intent folder creation and references below — replace every `taproot/<slug>/` in this skill with `<root>/<slug>/`.
+
 1. If the description is vague (under two sentences, or contains words like "improve", "better", "more" without specifics), ask up to three clarifying questions before drafting:
@@ -51,6 +53,7 @@ - "Who benefits from this, and what specifically changes for them?"
    **What's next?**
-   [A] `/tr-behaviour taproot/<slug>/` — define the first behaviour under this intent
-   [B] `/tr-decompose taproot/<slug>/` — decompose the intent into a full behaviour set
-   [C] `/tr-review taproot/<slug>/intent.md` — stress-test the spec before building
-   [D] `/tr-browse taproot/<slug>/` — browse related intents and behaviours for context
+   [1] `/tr-behaviour taproot/<slug>/` — define the first behaviour under this intent
+   [2] `/tr-ineed` — describe the full intent in plain language; routing will decompose it
+   [3] `/tr-audit taproot/<slug>/intent.md` — stress-test the spec before building
+   [4] `/tr-browse taproot/<slug>/` — browse related intents and behaviours for context
+   [P] Plan these — build a `taproot/plan.md` from these findings
 
@@ -75,6 +78,6 @@ ### Refining an existing intent
    **What's next?**
-   [A] `/tr-behaviour <path>/` — add or refine a behaviour under this intent
-   [B] `/tr-review <path>/intent.md` — stress-test the updated intent
-   [C] `/tr-status` — see overall project health
-   [D] `/tr-browse <path>/` — browse this intent and its behaviours for context
+   [1] `/tr-behaviour <path>/` — add or refine a behaviour under this intent
+   [2] `/tr-audit <path>/intent.md` — stress-test the updated intent
+   [3] `/tr-status` — coverage snapshot
+   [4] `/tr-browse <path>/` — browse this intent and its behaviours for context
 
@@ -115,1 +118,5 @@ ## Output
 ```
+
+## Notes
+
+- **Why, not what.** The intent must stay in its lane: it answers *why* the feature exists, not *what* the system does or *how* it is built. Goal and Success Criteria must describe business outcomes from a stakeholder's perspective — not behaviours, endpoints, or data models. "Users can reset their password without contacting support" is an intent; "the /reset endpoint accepts a token" is not.

skills/next.md

@@ -27,4 +27,4 @@ # Skill: plan
    **What's next?**
-   [A] `/tr-review-all` — semantic review of the full hierarchy
-   [B] `/tr-ineed` — capture a new requirement
+   [1] `/tr-audit-all` — spec quality audit
+   [2] `/tr-ineed` — capture a new requirement
 
@@ -31,0 +31,0 @@ Then stop.

skills/plan-analyse.md

@@ -66,4 +66,4 @@ # Skill: plan-analyse
    **What's next?**
-   [A] `/tr-plan-execute` — execute the plan (after resolving flagged items)
-   [B] `/tr-plan` — rebuild or add items to the plan
+   [1] `/tr-plan-execute` — execute the plan (after resolving flagged items)
+   [2] `/tr-plan` — rebuild or add items to the plan
 
@@ -70,0 +70,0 @@ ## Output

skills/plan-execute.md

@@ -35,7 +35,7 @@ # Skill: plan-execute
    How would you like to proceed?
-   [A] Step-by-step     — one item at a time, confirm each (default)
-   [B] Batch            — confirm full list upfront, then run all
-   [C] HITL only        — human-decision items only
-   [D] AFK only         — autonomous items only
-   [Q] Cancel
+   [1] Step-by-step     — one item at a time, confirm each (default)
+   [2] Batch            — confirm full list upfront, then run all
+   [3] HITL only        — human-decision items only
+   [4] AFK only         — autonomous items only
+   [C] Cancel
    ```
@@ -60,17 +60,19 @@ Wait for developer response, then continue with the chosen mode.
     1. [spec]      "description"
-    2. [implement] taproot/specs/<intent>/<behaviour>/ — "Validate Input Parameters"
-    3. [refine]    taproot/specs/<intent>/<behaviour>/usecase.md — "Execute Release Plan"
+    2. [implement] <intent>/<behaviour>/ — "Validate Input Parameters"
+    3. [refine]    <intent>/<behaviour>/usecase — "Execute Release Plan"
    ...
-   [A] Begin  [Q] Abort
+   [A] Begin  [C] Cancel
    ```
-   If `[Q]`: stop — no changes made.
+   If `[C]`: stop — no changes made.
 
 7. **For each pending item** (in plan order, respecting the filter):
 
+   **Path handling:** plan.md stores abbreviated paths (hierarchy root and `.md` stripped). Always display the abbreviated form. Before invoking a skill or CLI command, expand to the full path: prepend the hierarchy root (`taproot/` or configured root) and restore `.md` for file references.
+
    **a. Present the item** (always — even in batch mode, each item is shown before its skill runs). If the item references a path with an existing `usecase.md`, read its `# Behaviour: <title>` heading first:
    ```
-   Next: [implement] taproot/specs/<intent>/<behaviour>/
+   Next: [implement] <intent>/<behaviour>/
          "Validate Input Parameters" — <goal>
    Skill: /tr-implement
-   [R] Review spec  [A] Proceed  [S] Skip  [Q] Stop
+   [R] Review spec  [A] Proceed  [S] Skip  [C] Cancel
    ```
@@ -80,6 +82,9 @@ Where `"<Behaviour Title>"` comes from the `# Behaviour:` heading of the referenced `usecase.md` (omitted for `[spec]` items with no existing spec); `<goal>` is the plan item's inline description if present, otherwise a one-sentence summary derived from the spec's Actor and main outcome.
    **b. In step-by-step mode**, wait for developer response:
-   - `[R]`: invoke `/tr-browse <path>` for the item's behaviour path. Let browse run to full completion — including any sub-actions the developer selects within browse (e.g. `/tr-review`, navigating sections). Do not re-present the plan-execute prompt until the developer has finished all browse activity and browse itself has exited. Then re-present the same item prompt unchanged so the developer can choose `[R]`, `[A]`, `[S]`, or `[Q]`.
+   - `[R]`:
+     - **If the item has an existing path** (a `usecase.md` is present): invoke `/tr-browse <path>` and let browse run to full completion — including any sub-actions the developer selects within browse (e.g. `/tr-audit`, navigating sections). Do not re-present the plan-execute prompt until the developer has finished all browse activity and browse itself has exited.
+     - **If the item has no spec yet** (`[spec]` type with no existing path): show available design context inline — the item description, which skill will handle it, and any relevant hierarchy context (parent intent goal, sibling behaviours). Do not invoke `/tr-browse`.
+     - **In both cases**: re-present the same item prompt unchanged with all four options — `[R] Review  [A] Proceed  [S] Skip  [C] Cancel`. `[R]` must always reappear so the developer can continue reviewing before committing to proceed.
    - `[A]` or affirmative: proceed to c
    - `[S]`: mark item `skipped` in `taproot/plan.md`; move to next item
-   - `[Q]`: stop — remaining items stay `pending`
+   - `[C]`: stop — remaining items stay `pending`
 
@@ -104,4 +109,5 @@ **c. Invoke the skill** based on item type:
    M items remaining.
-   [A] Continue to next  [D] Stop for now
+   [R] Review written spec  [A] Continue to next  [D] Stop for now
    ```
+   - `[R]`: invoke `/tr-browse <path>` on the spec just written (the path the skill targeted); let browse run to full completion. Then re-present this same prompt with all three options — `[R]`, `[A]`, `[D]` — so the developer can keep reviewing before deciding. Omit `[R]` only if the item type is `[implement]` and no spec path is associated.
    - `[A]`: continue to next item
@@ -123,4 +129,4 @@ - `[D]` or no items remain: report final status (see step 8)
    **What's next?**
-   [A] Continue executing — call `/tr-plan-execute` again for remaining items
-   [B] `/tr-plan` — add more items to the plan
+   [1] Continue executing — call `/tr-plan-execute` again for remaining items
+   [2] `/tr-plan` — add more items to the plan
 
@@ -127,0 +133,0 @@ ## Output

skills/plan.md

@@ -22,5 +22,14 @@ # Skill: plan-build
 
-0a. **Detect vertical slice request.** If the developer's request uses phrases like "vertical slice", "walking skeleton", "tracer bullet", "thin slice", "minimal path", "just enough to demo", or similar:
-  1. Ask: *"Vertical slice — I need three things: **Actor** (who initiates), **Entry point** (where the flow begins), and **Observable outcome** (what the actor sees when it works)."*
-  2. Wait for the developer to supply the three inputs.
+0a. **Detect vertical slice request.** If the developer's request uses phrases like "vertical slice", "walking skeleton", "tracer bullet", "thin slice", "minimal path", "just enough to demo", or passes a pre-populated slice description (e.g. from a `/tr-implement` What's next option):
+  1. **If a description was pre-populated:** derive Actor, Entry point, and Observable outcome from it. Present the derived summary and ask for confirmation before proceeding:
+     ```
+     Slice: <description>
+     - Actor: <derived>
+     - Entry point: <derived>
+     - Observable outcome: <derived>
+
+     [A] Plan this slice  [E] Edit  [D] Discuss first  [C] Cancel
+     ```
+     Wait for the developer's choice. On `[E]`: apply edits, re-show, repeat. On `[D]`: discuss open questions, then re-present. On `[C]`: stop. On `[A]`: proceed to step 3 with the confirmed inputs.
+  2. **If no description was pre-populated:** ask: *"Vertical slice — I need three things: **Actor** (who initiates), **Entry point** (where the flow begins), and **Observable outcome** (what the actor sees when it works)."* Wait for the developer to supply the three inputs.
   3. Scan the hierarchy (`node dist/cli.js coverage`) and `taproot/backlog.md` to identify behaviours on the critical path — those whose absence would prevent the actor from reaching the observable outcome via the entry point. Non-critical-path behaviours are excluded entirely.
@@ -33,7 +42,7 @@ 4. Classify critical-path items using the same heuristics as step 3 (`spec`/`implement`/`refine`, `hitl`/`afk`).
       1. hitl  [spec]      "description"
-      2. afk   [implement] taproot/specs/<intent>/<behaviour>/
-     [A] Confirm  [E] Edit directly then reply A  [Q] Abort
+      2. afk   [implement] <intent>/<behaviour>/
+     [A] Confirm  [E] Edit directly then reply A  [C] Cancel
      ```
-     Wait for confirmation. On `[Q]`: stop — no files written. On `[E]`: wait for edits.
-  6. If `taproot/plan.md` already exists, offer: `[A] Append new items · [R] Replace · [Q] Abort` before writing.
+     Wait for confirmation. On `[C]`: stop — no files written. On `[E]`: wait for edits.
+  6. If `taproot/plan.md` already exists, offer: `[A] Append new items · [R] Replace · [C] Cancel` before writing.
   7. Write `taproot/plan.md` with only the critical-path items:
@@ -49,3 +58,3 @@ ```
      1. pending  [spec]      hitl  "description"
-     2. pending  [implement] afk   taproot/specs/<intent>/<behaviour>/
+     2. pending  [implement] afk   <intent>/<behaviour>/
      ```
@@ -80,6 +89,6 @@ 8. Confirm: *"Plan saved — N items in `taproot/plan.md`."* Stop — do not continue to step 1.
     1. hitl  [spec]      "description of new item"
-    2. hitl  [refine]    taproot/specs/<intent>/<behaviour>/usecase.md
-    3. afk   [implement] taproot/specs/<intent>/<behaviour>/
+    2. hitl  [refine]    <intent>/<behaviour>/usecase
+    3. afk   [implement] <intent>/<behaviour>/
 
-   [A] Confirm  [E] Edit directly then reply A  [Q] Abort
+   [A] Confirm  [E] Edit directly then reply A  [Q] Abort  [C] Cancel
    ```
@@ -90,3 +99,3 @@ Wait for developer response. Do not write any files before confirmation.
    - **[E]**: wait for the developer to paste an edited list in the conversation, then treat it as the confirmed plan and continue to step 7.
-   - **[Q]**: stop — no files written.
+   - **[Q] Abort** or **[C]**: stop — no files written.
    - **[A]** or any affirmative: continue to step 7.
@@ -96,6 +105,6 @@
    - Report: *"A plan already exists with N items."*
-   - Offer: `[A] Append new items · [R] Replace · [Q] Abort`
+   - Offer: `[A] Append new items · [R] Replace · [C] Cancel`
    - **[A]**: append only items not already present (match by type + path/description).
    - **[R]**: replace the file with the new plan.
-   - **[Q]**: stop — no files modified.
+   - **[C]**: stop — no files modified.
 
@@ -112,6 +121,8 @@ 8. **Write `taproot/plan.md`** using this format:
    1. pending  [spec]      hitl  "description of new item"
-   2. pending  [implement] afk   taproot/specs/<intent>/<behaviour>/
-   3. pending  [refine]    hitl  taproot/specs/<intent>/<behaviour>/usecase.md
+   2. pending  [implement] afk   <intent>/<behaviour>/
+   3. pending  [refine]    hitl  <intent>/<behaviour>/usecase
    ```
 
+   **Path format:** store abbreviated paths — strip the hierarchy root prefix (`taproot/` or `taproot/specs/`) and `.md` extension. Preserve trailing `/` for directory references. Expand to full path before passing to CLI commands.
+
    Status values: `pending` · `done` · `skipped` · `blocked` · `stale`
@@ -126,4 +137,4 @@
    **What's next?**
-   [A] `/tr-plan-analyse` — check readiness of all items before executing
-   [B] `/tr-plan-execute` — start executing items one by one
+   [1] `/tr-plan-analyse` — check readiness of all items before executing
+   [2] `/tr-plan-execute` — start executing items one by one
 
@@ -130,0 +141,0 @@ ## Output

skills/promote.md

@@ -53,4 +53,4 @@ # Skill: promote
     **What's next?**
-    [A] `/tr-refine taproot/<intent-slug>/<behaviour-slug>/` — refine the most-affected behaviour
-    [B] `/tr-review taproot/<intent-slug>/intent.md` — stress-test the updated intent
+    [1] `/tr-refine taproot/<intent-slug>/<behaviour-slug>/` — refine the most-affected behaviour
+    [2] `/tr-audit taproot/<intent-slug>/intent.md` — stress-test the updated intent
 
@@ -70,2 +70,2 @@ ## Output
 - Use this skill when the finding changes the answer to "is this intent achievable?" or "are we building the right thing?" — not for normal implementation learnings (use `/taproot:refine` for those).
-- If multiple findings accumulate in the Notes section without being resolved, that is a signal to run a full `/taproot:review` or `/taproot:review-all` on the intent.
+- If multiple findings accumulate in the Notes section without being resolved, that is a signal to run a full `/taproot:audit` or `/taproot:audit-all` on the intent.

skills/refine.md

@@ -67,5 +67,5 @@ # Skill: refine
    **What's next?**
-   [A] Commit the spec change — `git add <path>/usecase.md && git commit`
-   [B] `/tr-implement <path>/` — spec changed significantly; reimplementation needed
-   [C] `/tr-browse <path>/` — explore related behaviours and impls for broader context
+   [1] Commit the spec change — `/tr-commit`
+   [2] `/tr-implement <path>/` — spec changed significantly; reimplementation needed
+   [3] `/tr-browse <path>/` — explore related behaviours and impls for broader context
 
@@ -72,0 +72,0 @@ ## Output

skills/release.md

@@ -57,5 +57,5 @@ # Skill: release
    Present the entry in the conversation and ask:
-   > Review changelog for v\<next\>. **[Y]** proceed · **[E]** edit `CHANGELOG.md` directly then reply Y · **[Q]** abort
+   > Review changelog for v\<next\>. **[Y]** proceed · **[E]** edit `CHANGELOG.md` directly then reply Y · **[C]** cancel
 
-   - **[Q]**: report "Release aborted — no files modified." and stop.
+   - **[C]**: report "Release aborted — no files modified." and stop.
    - **[E]**: wait for the user to confirm they have finished editing, then re-read the edited `CHANGELOG.md` entry.
@@ -84,3 +84,3 @@ - **[Y]**: write the entry to `CHANGELOG.md`:
    - Runs `taproot truth-sign` (ensures session is fresh for the hook)
-   - Commits `package.json`, `channels/vscode/package.json`, `CHANGELOG.md`, and `.taproot/.truth-check-session` with message `chore: release v<next>`
+   - Commits `package.json`, `channels/vscode/package.json`, `CHANGELOG.md`, and `taproot/truth-checks.md` with message `chore: release v<next>`
    - Creates tag `v<next>`
@@ -87,0 +87,0 @@ - Pushes commit and tag to `origin/main`

skills/research.md

@@ -93,3 +93,3 @@ # Skill: research
    > **`[F] Feed directly into a spec`**
-   > **`[Q] Discard and stop`**
+   > **`[C] Discard and stop`**
 
@@ -101,6 +101,6 @@ - **[S]** — create `taproot/research/` directory if absent; write `taproot/research/<topic-slug>.md` using the final summary structure from step 7; present:
      **What's next?**
-     [A] `/tr-behaviour taproot/<intent>/` — write a spec informed by this research
-     [B] `/tr-ineed "<topic>"` — route it as a requirement with research context attached
+     [1] `/tr-behaviour taproot/<intent>/` — write a spec informed by this research
+     [2] `/tr-ineed "<topic>"` — route it as a requirement with research context attached
    - **[F]** — pass the final summary as input context to `/tr-behaviour`; no file written
-   - **[Q]** — discard the synthesis; exit without writing any file or chaining to another skill
+   - **[C]** — discard the synthesis; exit without writing any file or chaining to another skill
 
@@ -107,0 +107,0 @@ ## Output

skills/status.md

@@ -21,4 +21,8 @@ # Skill: status
 
-5. Synthesize into a structured report:
+5. Read `taproot/backlog.md` if it exists. Count the total number of items and extract the first 3 item titles for the summary. If the file is absent or empty, omit the **Backlog** section from the report entirely.
 
+6. Read `taproot/plan.md` if it exists. Count pending items (unchecked `[ ]`) and complete items (checked `[x]`). Identify the title of the first pending item as the next action. If the file is absent, omit the **Plan** section from the report entirely.
+
+7. Synthesize into a structured report:
+
 ```
@@ -57,2 +61,13 @@ # Taproot Status Report
 
+## Backlog
+<N> items captured  (omit section if backlog.md absent or empty)
+· <item 1 title>
+· <item 2 title>
+· <item 3 title>
+… and <N-3> more
+
+## Plan
+<N> pending · <N> complete  (omit section if plan.md absent)
+Next: <title of first pending item>
+
 ## Suggested Next Actions
@@ -65,3 +80,3 @@ 1. Fix format errors: `taproot validate-format --fix`
 
-6. Prioritize suggestions by severity:
+8. Prioritize suggestions by severity:
    - Validation errors first (broken structure/format)
@@ -73,3 +88,3 @@ - Orphaned or broken references second
 
-7. If no issues are found: "Everything looks healthy. <N> intents, <N> behaviours, <N> implementations — all valid, complete, and tested."
+9. If no issues are found: "Everything looks healthy. <N> intents, <N> behaviours, <N> implementations — all valid, complete, and tested."
 
@@ -81,5 +96,5 @@ Present next steps based on what was found:
      **What's next?**
-     [A] `/tr-implement taproot/<intent>/<behaviour>/` — implement unimplemented behaviour
-     [B] `/tr-refine taproot/<intent>/<behaviour>/` — add missing tests
-     [C] `/tr-next` — pick a different next item
+     [1] `/tr-implement taproot/<intent>/<behaviour>/` — implement unimplemented behaviour
+     [2] `/tr-refine taproot/<intent>/<behaviour>/` — add missing tests
+     [3] `/tr-next` — pick a different next item
 
@@ -89,6 +104,6 @@ - **If no specific items were found** (healthy project): check whether `taproot/backlog.md` exists and contains items. Show the generic fallback menu:
      **What's next?**
-     [A] `/tr-next` — pick the next behaviour to implement
-     [B] `/tr-ineed` — route a new requirement into the hierarchy
-     [C] `/tr-review-all` — deeper semantic review of specs
-     [D] `/tr-backlog` — triage captured ideas (only if `taproot/backlog.md` is non-empty)
+     [1] `/tr-next` — pick the next behaviour to implement
+     [2] `/tr-ineed` — route a new requirement into the hierarchy
+     [3] `/tr-audit-all` — spec quality audit
+     [4] `/tr-backlog` — triage captured ideas (only if `taproot/backlog.md` is non-empty)
 
@@ -110,2 +125,2 @@ ## Output
 - This skill is read-only. It reports, it does not modify.
-- For deep semantic issues (unclear specs, over-scoped intents), this skill will not catch them — suggest `/taproot:review-all` for that.
+- For deep semantic issues (unclear specs, over-scoped intents), this skill will not catch them — suggest `/taproot:audit-all` for that.

skills/sweep.md

@@ -39,4 +39,4 @@ # Skill: sweep
    > ```
-   > taproot/intent-a/behaviour-b/usecase.md
-   > taproot/intent-a/behaviour-c/usecase.md
+   > intent-a/behaviour-b/usecase
+   > intent-a/behaviour-c/usecase
    > ...
@@ -55,3 +55,3 @@ > ```
       ```
-      [x] taproot/intent-a/behaviour-b/usecase.md
+      [x] taproot/intent-a/behaviour-b/usecase
       ```
@@ -65,3 +65,3 @@ d. Write the updated checklist (task description + full file list with current `[x]`/`[ ]` state) to `.taproot/sessions/sweep-status.md`. This persists progress so the session can be resumed if interrupted.
      ```
-     [ ] taproot/intent-a/behaviour-c/usecase.md — no matching test file found
+     [ ] intent-a/behaviour-c/usecase — no matching test file found
      ```
@@ -80,4 +80,4 @@
    **What's next?**
-   [A] `/tr-sweep` again — run another sweep with a different task or scope
-   [B] `/tr-status` — see the full project health after these changes
+   [1] `/tr-sweep` again — run another sweep with a different task or scope
+   [2] `/tr-status` — coverage snapshot
 
@@ -84,0 +84,0 @@ ## Output

skills/trace.md

@@ -29,8 +29,8 @@ # Skill: trace
 File: src/auth/password-reset.ts
-  └─ impl: taproot/password-reset/request-reset/email-trigger/impl.md
+  └─ impl: password-reset/request-reset/email-trigger/impl
         State: complete | 2 commits | 1 test
-     └─ behaviour: taproot/password-reset/request-reset/usecase.md
+     └─ behaviour: password-reset/request-reset/usecase
            Behaviour: Request Password Reset
            State: implemented
-        └─ intent: taproot/password-reset/intent.md
+        └─ intent: password-reset/intent
                Intent: Password Reset Without Support Contact
@@ -45,4 +45,4 @@ State: active
    **What's next?**
-   [A] `/tr-trace --unlinked` — find all unlinked files across the codebase
-   [B] `/tr-implement <path>/` — create a traceability record for this file
+   [1] `/tr-trace --unlinked` — find all unlinked files across the codebase
+   [2] `/tr-implement <path>/` — create a traceability record for this file
 
@@ -54,4 +54,4 @@ If the chain was found, present:
    **What's next?**
-   [A] `/tr-refine <behaviour-path>/` — update the spec if it has drifted from the code
-   [B] `/tr-implement <behaviour-path>/` — add a new implementation under this behaviour
+   [1] `/tr-refine <behaviour-path>/` — update the spec if it has drifted from the code
+   [2] `/tr-implement <behaviour-path>/` — add a new implementation under this behaviour
 
@@ -90,4 +90,4 @@ ### Bottom-up (from a commit hash)
    **What's next?**
-   [A] `/tr-implement taproot/<intent-slug>/<unimplemented-behaviour-slug>/` — implement the first unimplemented behaviour
-   [B] `/tr-refine taproot/<intent-slug>/<behaviour-slug>/` — update a spec that has drifted
+   [1] `/tr-implement taproot/<intent-slug>/<unimplemented-behaviour-slug>/` — implement the first unimplemented behaviour
+   [2] `/tr-refine taproot/<intent-slug>/<behaviour-slug>/` — update a spec that has drifted
 
@@ -94,0 +94,0 @@ ### Lateral (siblings and cousins)

skills/design-constraints.md

-# Skill: design-constraints
-
-## Description
-
-Capture project-wide constraints in a structured session — architectural decisions (ADR format), design principles, conventions and rules, or external constraints imposed from outside. Writes structured entries to `taproot/global-truths/`.
-
-## Inputs
-
-- `category` (optional): Pre-selected format — `decision`, `principle`, `convention`, or `external`. If omitted, the skill asks interactively or classifies from description.
-
-## Steps
-
-1. **Format selection** — Ask: "What kind of constraint do you want to capture?"
-   - **[D] Decision** — something your team chose from options (architecture, security approach, tooling, accessibility library)
-   - **[P] Principle** — a design value guiding ongoing choices (UX, accessibility, sustainability, performance philosophy)
-   - **[R] Rule / Convention** — a specific constraint with right/wrong examples (naming, coding style, data handling, security rules)
-   - **[E] External constraint** — imposed from outside; not your team's choice (third-party API, regulatory requirement, legacy system, client contract)
-
-   If the developer describes a constraint without naming the format, classify it:
-   - Sounds like a choice between options → suggest [D]
-   - Sounds like a design value or philosophy → suggest [P]
-   - Sounds like a specific do/don't rule → suggest [R]
-   - Sounds like an external imposition → suggest [E]
-   Ask: "That sounds like a [format] — is that right?" and confirm before proceeding.
-
-2. **[D] Decision — ADR format:**
-   a. Check early: "Was this imposed on you, or did your team choose it? If it was imposed, this may be better captured as an External constraint [E]."
-   b. Ask: "Describe the situation — what problem or context prompted this decision?"
-   c. Ask: "What options did you consider? For each, what was the key trade-off?"
-   d. Ask: "Which option did you choose, and why?"
-   e. Ask: "What consequences follow — benefits you expect and trade-offs you accept?"
-   f. If the developer hasn't decided yet: record as open — "Status: open" with context and options listed; note: "Recorded as open — will not constrain specs until resolved."
-   g. Propose scope: **impl** (default for technology choices) | **behaviour** | **intent**
-   h. Propose file name: `architecture_impl.md` (default) — or ask if the domain warrants a different name (e.g. `security_impl.md`, `infra_impl.md`)
-   i. Format the entry:
-      ```
-      ## [Decision title]
-
-      **Status:** decided | open
-      **Context:** [situation]
-      **Options considered:**
-      - [Option A]: [trade-off]
-      - [Option B]: [trade-off]
-      **Decision:** [chosen option and why]
-      **Consequences:** [expected benefits and accepted trade-offs]
-      ```
-
-3. **[P] Principle — Principle format:**
-   a. Ask: "Name this principle in 3–5 words."
-   b. Ask: "What is the rationale — why does this principle exist in your project?"
-   c. Ask: "Give an example of applying this principle correctly."
-   d. Ask: "Give an example of violating this principle." If the developer cannot provide one, proceed without it and note: "A violation example would make this principle more testable — consider adding one later."
-   e. Propose scope: **intent** (default — cross-cutting values) | **behaviour**
-   f. Propose file name: `principles_intent.md` (default) — or a domain-specific name (e.g. `ux-principles_intent.md`, `security-principles_impl.md`)
-   g. Format the entry:
-      ```
-      ## [Principle name]
-
-      **Rationale:** [why this principle exists]
-      **Correct:** [example of following it]
-      **Violation:** [example of ignoring it] (if provided)
-      ```
-
-4. **[R] Rule / Convention — Rule format:**
-   a. Ask: "Describe the rule — what must always (or never) be done?"
-   b. Ask: "Give a correct example."
-   c. Ask: "Give an incorrect example."
-   d. Ask: "Is there a rationale worth recording?" (optional)
-   e. Ask: "Are there known exceptions?" If yes, ask the developer to describe them.
-   f. If the rule is too broad to produce a clear example (e.g. "write clean code"), ask: "Can you make this more specific — what would a developer do differently by following this rule?"
-   g. Propose scope: **impl** (default for coding conventions) | **behaviour** | **intent**
-   h. Propose file name: `conventions_impl.md` (default) — or a domain-specific name (e.g. `naming_intent.md`, `api-rules_impl.md`)
-   i. Format the entry:
-      ```
-      ## [Convention name]
-
-      **Rule:** [rule statement]
-      **Correct:** [example]
-      **Incorrect:** [example]
-      **Rationale:** [why this rule exists] (if provided)
-      **Exceptions:** [known exceptions] (if any)
-      ```
-
-5. **[E] External constraint — External format:**
-   a. Ask: "Describe the constraint — what are you required to do, use, or avoid?"
-   b. Check early: "Was this imposed on you, or did your team choose it? If your team chose it, this is better captured as a Decision [D]." Redirect if confirmed.
-   c. Ask: "Who or what imposed this? (e.g. client contract, regulator, platform, legacy system, corporate policy)"
-   d. Ask: "What are the implications for the project?"
-   e. Ask: "Is there an expiry or review date?" (optional)
-   f. Ask: "Is there a known workaround or mitigation?" (optional)
-   g. Propose scope: **intent** (default — external constraints typically affect the whole project) | **behaviour** | **impl**
-   h. Propose file name: `external-constraints_intent.md` (default) — or a domain-specific name (e.g. `regulatory_intent.md`, `platform-limits_impl.md`)
-   i. Format the entry:
-      ```
-      ## [Constraint title]
-
-      **Source:** [who or what imposed this]
-      **Constraint:** [what is required or forbidden]
-      **Implications:** [what this means for the project]
-      **Expiry/Review:** [date or condition, if known]
-      **Workaround:** [mitigation, if any]
-      ```
-
-6. **Contradiction check** — Before writing, read the target truth file if it already exists. If the new entry appears to contradict an existing entry, flag it:
-   > "This appears to contradict an existing entry: [excerpt]. [A] update the existing entry, [B] record both with a distinction note, [C] cancel."
-   Wait for the developer's choice before writing.
-
-7. **Write** — Append the formatted entry to the target truth file (creating it if absent). Confirm: "Written — [entry title] added to `<path>`."
-
-8. **Loop** — Ask: "Another constraint, or done?" If another: return to step 1. If done: proceed to step 9.
-
-9. **Completeness check** — Note which of the four formats were not used in this session and ask: "You haven't captured any [format(s)] yet — would you like to add some now?" Developer may decline.
-
-> 💡 If this session is getting long, consider running `/compact` or starting a fresh context before the next task.
-
-**What's next?**
-[A] `/tr-define-truth` — capture a free-form truth (DB schema, API contract, glossary) not suited to these formats
-[B] `/tr-discover-truths` — scan existing specs for implicit truth candidates
-[C] `/tr-commit` — commit the new truth files
-
-## Output
-
-One or more truth files written or appended in `taproot/global-truths/` with structured, consistently formatted entries.
-
-## CLI Dependencies
-
-None.
-
-## Notes
-
-- For free-form truths — DB schemas, API contracts, data dictionaries, reference tables — use `/tr-define-truth` directly. This skill is for constraints that benefit from structured prompting.
-- Scope conventions: Decisions default to `impl` (technology choices); Principles default to `intent` (cross-cutting values); Conventions default to `impl` (coding rules); External constraints default to `intent` (project-wide impositions). Developers may choose any scope.
-- Sub-behaviour specs for each format: `taproot/specs/global-truth-store/author-design-constraints/usecase.md`

skills/review-all.md

-# Skill: review-all
-
-## Description
-
-Run a comprehensive review of an entire subtree — an intent and all its descendants, or the entire `taproot/` root. Applies the per-artifact review logic from `/taproot:review` to each node, then adds cross-cutting analysis that can only be done by comparing artifacts against each other. Produces a consolidated report.
-
-## Inputs
-
-- `path` (optional): Path to an intent folder or the `taproot/` root. Defaults to `taproot/`.
-
-## Steps
-
-1. Run `taproot validate-structure --path <path>` and `taproot validate-format --path <path>`. Include any validation errors in the report as **Structural Issues** (resolve these before addressing semantic issues — a structurally invalid hierarchy produces unreliable analysis).
-
-2. Run `taproot check-orphans --path <path> --include-unimplemented`. Include results in the report as **Orphan & Coverage Issues**.
-
-3. Run `taproot sync-check --path <path>`. Include results in the report as **Staleness Warnings**.
-
-4. Walk the subtree top-down. For each artifact found:
-   - Read the file
-   - Apply the review logic from `/taproot:review` (Steps 3 of that skill)
-   - Record findings tagged with the artifact path
-
-5. After reviewing all individual artifacts, perform **cross-cutting analysis**:
-
-   **Intent ↔ Behaviours:**
-   - For each intent, check every success criterion against the list of behaviours. Is there at least one behaviour that, if implemented, would contribute to satisfying each criterion? Flag criteria with no corresponding behaviour as **Coverage Gaps**.
-   - Are there behaviours that don't obviously serve any success criterion? Flag as **Potentially Gold-Plated**.
-   - Do sibling behaviours have contradictory postconditions? (e.g., behaviour A sets a flag, behaviour B assumes that flag is unset)
-
-   **Behaviours ↔ Implementations:**
-   - For each behaviour, check whether its main flow steps are traceable to at least one implementation. Steps with no implementation are **Unimplemented Flows**.
-   - Do implementations reference source files that have been modified more recently than the spec was last reviewed? (Cross-reference with `taproot sync-check` output.)
-
-   **Across the hierarchy:**
-   - Are there behaviours that are nearly identical across different intents? Possible duplication.
-   - Are there intents at similar levels of completion, where one could be sequenced to unblock the other?
-
-6. Assemble the consolidated report:
-
-```
-# Taproot Review: <path>
-
-## Structural Issues
-<from validate-structure and validate-format>
-
-## Orphan & Coverage Issues
-<from check-orphans>
-
-## Staleness Warnings
-<from sync-check>
-
-## Cross-Cutting Issues
-### Coverage Gaps
-### Contradictions
-### Duplication
-
-## Per-Artifact Findings
-
-### <artifact-path>
-**Blockers**: ...
-**Concerns**: ...
-**Suggestions**: ...
-
-```
-
-7. Close with a prioritized action list: "Recommended next steps: (1) resolve structural issues, (2) address blockers in [artifact], (3) fill coverage gaps for [criterion]."
-
-8. **Truth discovery pass** — if `taproot/global-truths/` exists and the hierarchy has 3 or more readable `intent.md`/`usecase.md` files (excluding `global-truths/`):
-
-   Run the same scan as `/tr-discover-truths` (Phase 2–3 of that skill): collect candidates not already defined in `global-truths/` and not suppressed by `taproot/backlog.md` dismissed entries.
-
-   If candidates are found, append to the report:
-
-   ```
-   ## Truth Candidates
-
-   The following implicit facts were detected in the hierarchy but are not yet captured as global truths:
-
-   - `<term>` (scope: <intent|behaviour|impl>) — found in: <spec-path>, <spec-path>
-   ...
-   ```
-
-   Then offer:
-   > "[P] Process candidates now via `/tr-discover-truths`  [D] Defer — append all to backlog"
-
-   **If [P]:** invoke `/tr-discover-truths` inline; return here when it completes.
-
-   **If [D]:** append each candidate to `taproot/backlog.md` as `- [YYYY-MM-DD] truth candidate: <term>`.
-
-   If no candidates found (hierarchy consistent with existing truths), append to report:
-   ```
-   ## Truth Candidates
-   No new candidates — hierarchy is consistent with existing global truths.
-   ```
-
-9. Present next steps:
-
-> 💡 If this session is getting long, consider running `/compact` or starting a fresh context before the next task.
-
-   **What's next?**
-   [A] `/tr-refine <highest-priority-path>` — fix the top-priority finding
-   [B] `/tr-next` — surface the next implementable behaviour
-   [C] `/tr-backlog <finding>` — capture a deferred finding before routing it to the hierarchy
-
-## Output
-
-A consolidated review report covering the entire subtree, with structural issues, cross-cutting analysis, and per-artifact findings.
-
-## CLI Dependencies
-
-- `taproot validate-structure`
-- `taproot validate-format`
-- `taproot check-orphans`
-- `taproot sync-check`
-
-## Notes
-
-- For large hierarchies (>20 artifacts), batch the per-artifact review by intent to avoid overwhelming the user. Present one intent at a time and ask if they want to continue.
-- If the user wants to act on findings immediately, each finding can link to the skill that fixes it: `/taproot:refine` for behaviour and impl issues, `/taproot:intent` for intent issues, `/taproot:implement` for unimplemented flows.

skills/review.md

-# Skill: review
-
-## Description
-
-Stress-test a single Taproot artifact — an `intent.md`, `usecase.md`, or `impl.md` — by challenging it from multiple angles. Produces a structured critique with prioritized findings. Does **not** auto-modify the artifact; the user decides what to act on.
-
-## Inputs
-
-- `path` (required): Path to a Taproot artifact (`intent.md`, `usecase.md`, or `impl.md`).
-
-## Steps
-
-1. Read the artifact at `path`. Identify its type by filename.
-
-2. If the artifact has a parent (e.g., a `usecase.md` has a parent `intent.md`), read the parent to understand context. If siblings exist (other behaviours under the same intent), read those too — cross-checking is part of a thorough review.
-
-3. Apply the challenge set appropriate to the artifact type:
-
-   **For `intent.md`:**
-   - Is the goal measurable? Can you unambiguously declare it achieved?
-   - Are the success criteria specific enough, or can you hit them without delivering real value?
-   - Who is missing from the stakeholder list? (security team? operations? legal? downstream systems? support?)
-   - What happens if this is never built? Is the status quo actually acceptable, or is the cost of inaction undersold?
-   - Is this one intent or multiple intents in a trenchcoat? (Signs: "and" in the goal, >4 success criteria, multiple unrelated stakeholder groups)
-   - What is the smallest version of this that would deliver value? Is the current scope justified?
-   - Do any success criteria contradict each other, or compete for the same finite resource (time, budget, attention)?
-   - Are the constraints real constraints (regulatory, physical, contractual) or assumed constraints that should be challenged?
-
-   **For `usecase.md`:**
-   - Does every step in the main flow have a clear actor and a clear outcome?
-   - What happens when step N fails? Map every failure mode — missing network, invalid state, concurrent users, timeout.
-   - What are the performance expectations? Is 100ms acceptable? 10 seconds? Does it matter? (Unstated = undefined = will cause conflict later.)
-   - How does this behave under load? Concurrent executions? Race conditions on shared state?
-   - What data does this touch, and what happens if that data is malformed, missing, or stale?
-   - Is this one UseCase or two? (Signs: "or" in the main flow, alternate flow that rewrites most of the main flow, two distinct actors)
-   - What happens at the boundaries — first use ever, N+1th use, quota exhaustion, rollback after failure?
-   - Are the postconditions complete? Does something need to be notified? Logged? Cleaned up?
-   - Do the error conditions cover all failure modes discovered above, with specific system responses?
-
-   **For `impl.md`:**
-   - Is each design decision justified by the usecase requirements, or is it "we always do it this way"?
-   - What are the failure modes of the chosen approach? Under what conditions does it break?
-   - Are the tests verifying observable behaviour from the actor's perspective, or are they testing implementation details?
-   - What is NOT covered by the listed tests that should be? (Error paths, concurrent access, edge inputs, integration with external systems)
-   - Will this implementation survive the next likely change to the behaviour spec? (e.g., if a new actor is added, or a new postcondition)
-   - Are the source files listed complete? Could the behaviour actually be satisfied by these files, or are there missing dependencies?
-   - Do the commits listed account for all the code in the source files? Are there uncommitted changes?
-
-4. Categorize every finding:
-   - **Blocker** — must be resolved before proceeding (spec is incomplete or contradictory in a way that will cause implementation failures)
-   - **Concern** — should be addressed soon (spec has a gap or assumption that will likely cause problems)
-   - **Suggestion** — worth considering (improvement that reduces risk or improves clarity, but not urgent)
-
-5. Present findings in priority order (blockers first), using concrete examples from the artifact text. For each finding, quote the specific line or section being challenged.
-
-6. Present next steps:
-
-> 💡 If this session is getting long, consider running `/compact` or starting a fresh context before the next task.
-
-   **What's next?**
-   [A] `/tr-refine <path>` — apply the findings to the spec
-   [B] `/tr-implement <path>/` — spec is clean; proceed to implementation
-   [C] `/tr-backlog <finding>` — capture an out-of-scope issue for later without routing it now
-
-## Output
-
-A structured critique report with findings grouped as **Blockers**, **Concerns**, and **Suggestions**. Each finding quotes the relevant artifact text and explains the risk.
-
-The artifact is NOT modified.
-
-## CLI Dependencies
-
-None during review. The user then decides whether to run:
-- `taproot validate-format` (to check current state)
-- `/taproot:refine` (to apply suggested changes)
-- `/taproot:intent` (to revise the intent)
-
-## Notes
-
-- Do not soften the critique. The purpose is to find real problems before implementation, not to validate the work. A review that finds nothing is not a success — it means you weren't looking hard enough.
-- If the artifact is clearly a placeholder or stub (lots of `<placeholder>` text), flag this explicitly rather than reviewing the placeholders themselves.

New alerts

Environment variable access

Supply chain risk

Package accesses environment variables, which may be a sign of credential stuffing or data theft.

Filesystem access

Supply chain risk

Accesses the file system, and could potentially read sensitive data.

AI-detected potential code anomaly

Supply chain risk

AI has identified unusual behaviors that may pose a security risk.

Long strings

Supply chain risk

Contains long string literals, which may be a sign of obfuscated or packed code.

URL strings

Supply chain risk

Package contains fragments of external URLs or IP addresses, which the package may be accessing at runtime.

Fixed alerts

AI-detected potential code anomaly

Supply chain risk

AI has identified unusual behaviors that may pose a security risk.

Long strings

Supply chain risk

Contains long string literals, which may be a sign of obfuscated or packed code.

URL strings

Supply chain risk

Package contains fragments of external URLs or IP addresses, which the package may be accessing at runtime.

Improved metrics

Total package byte prevSize

989464

8.19%

Number of package files

188

2.17%

Lines of code

7773

6.83%

Number of lines in readme file

153

19.53%

Worsened metrics

Number of low supply chain risk alerts

39

5.41%

No dependency changes