craftar 0.35.0 → 0.37.0

package/dist/emitters/agents-md.js

@@ -1,6 +1,8 @@
-import { buildRuleLookup, outName, resolveRuleRefs, ruleFile, ruleWriter, textFile } from "./shared.js";
+import { buildRuleLookup, effectiveTargets, outName, resolveRuleRefs, ruleFile, ruleWriter, textFile } from "./shared.js";
 /** The param that sets the AGENTS.md size budget, read by `plan()` (and reserved from extraction, like `kiro.banner`). */
 export const AGENTS_MD_BUDGET_KEY = "agents-md.maxBytes";
+/** The param that turns AGENTS.md into the one home of the always-on rules (spec 41 §4.1). */
+export const AGENTS_MD_PRIMARY_KEY = "agents-md.primary";
 /**
  * AGENTS.md target (open standard read by Codex, Cursor, Warp, Copilot, Kiro, Kimi…).
  * Concatenates the `always` rules into one file. Scoped rules (`fileMatch`, `manual`, `auto`)
@@ -30,7 +32,12 @@ export const agentsMd = {
         if (!rules.length)
             return [];
         // Build the lookup once per AGENTS.md, not once per body (spec 15 §4.2)
-        const lookup = buildRuleLookup(ctx.resolution.ingredients);
+        const lookup = buildRuleLookup(ctx.resolution.ingredients, ctx.resolution);
+        // For mode-off comparison (spec 41 §4.4)
+        const primary = ctx.resolution.primary;
+        const lookupOff = primary ? buildRuleLookup(ctx.resolution.ingredients, { primary: false }) : null;
+        // Track whether any text differs due to mode
+        let anyDiffersDueToMode = false;
         const parts = [
             "<!-- GENERATED by craftar from the Forge. Edit the rule ingredients, not this file. -->",
             "",
@@ -52,13 +59,19 @@ export const agentsMd = {
                 const { text: resolved, report } = resolveRuleRefs(rawBody, ing.ref, lookup, ctx.resolution.targets);
                 alwaysReports.push(report);
                 const body = resolved.replace(/\n+$/, "");
+                // Check for reworded (spec 41 §4.4)
+                if (primary && lookupOff) {
+                    const modeOffResolved = resolveRuleRefs(rawBody, ing.ref, lookupOff, ctx.resolution.targets).text;
+                    if (modeOffResolved !== resolved)
+                        anyDiffersDueToMode = true;
+                }
                 // Report the byte size of this always-on rule's body as it appears in AGENTS.md
                 ctx.reportAgentsMdRule(outName(ing.meta), Buffer.byteLength(body, "utf8"), false);
                 parts.push(`<!-- rule: ${outName(ing.meta)} -->`, body, "");
             }
             else {
                 // Spec 14 §4.1: decide which target writes this rule file
-                const writer = ruleWriter(ctx.resolution.targets, ing.meta.targets);
+                const writer = ruleWriter(ctx.resolution.targets, effectiveTargets(ing.meta, ctx.resolution));
                 const scopeText = ing.meta.inclusion === "fileMatch"
                     ? `applies to \`${[ing.meta.fileMatchPattern].flat().join("`, `")}\``
                     : ing.meta.inclusion;
@@ -74,6 +87,12 @@ export const agentsMd = {
                     const { text: resolved, report } = resolveRuleRefs(rawBody, ing.ref, lookup, ctx.resolution.targets);
                     embeddedReports.push(report);
                     const body = resolved.replace(/\n+$/, "");
+                    // Check for reworded (spec 41 §4.4)
+                    if (primary && lookupOff) {
+                        const modeOffResolved = resolveRuleRefs(rawBody, ing.ref, lookupOff, ctx.resolution.targets).text;
+                        if (modeOffResolved !== resolved)
+                            anyDiffersDueToMode = true;
+                    }
                     // Report the byte size of this embedded scoped rule
                     ctx.reportAgentsMdRule(outName(ing.meta), Buffer.byteLength(body, "utf8"), true);
                     embedded.push(`<!-- rule: ${outName(ing.meta)} -->`, `> Scoped rule — ${scopeText}`, "", body, "");
@@ -89,6 +108,10 @@ export const agentsMd = {
         // Emit the warning per spec 15 §4.5: at most one ctx.warn for AGENTS.md
         // Reports in AGENTS.md order: always-on first, then embedded
         emitRefWarning(ctx.warn, [...alwaysReports, ...embeddedReports]);
+        // Report reworded if any body differs due to mode (spec 41 §4.4)
+        if (anyDiffersDueToMode) {
+            ctx.reportReworded("AGENTS.md");
+        }
         return [await textFile(ctx, "AGENTS.md", parts.join("\n"), "agents-md", "rule/*")];
     },
 };

package/dist/emitters/agents-md.js.map

@@ -1 +1 @@
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package/dist/emitters/claude-code.js

@@ -1,9 +1,14 @@
+import path from "node:path";
 import { serializeFrontmatter } from "../core/frontmatter.js";
 import { listFiles } from "../core/forge.js";
-import { authEnvNames, EXAMPLE_SETTINGS, mcpServers, outName, ruleFile, textFile } from "./shared.js";
+import { decodeForScan } from "../core/secrets.js";
+import { authEnvNames, buildRuleLookup, EXAMPLE_SETTINGS, formatDeadRefs, formatScannedRefs, mcpServers, outName, resolveRuleRefs, ruleFile, textFile, unresolvedRuleRefs, UNKNOWN_NAME_KIND, } from "./shared.js";
 /**
  * Claude Code target: `.claude/{rules,agents,commands,skills,scripts,hooks}` + `.mcp.json`.
  * Files are emitted verbatim from the Forge so that `import` → `sync` on the source workspace is a no-op.
+ *
+ * Under agents-md.primary (spec 41 §4.4), references to rules in bodies are resolved through
+ * resolveRuleRefs, and copied files are scanned and warned about but not rewritten.
  */
 export const claudeCode = {
     target: "claude-code",
@@ -11,50 +16,128 @@ export const claudeCode = {
         const out = [];
         const t = "claude-code";
         const mcp = [];
+        const primary = ctx.resolution.primary;
+        // Under the mode, build the lookup once
+        const lookup = primary ? buildRuleLookup(ctx.resolution.ingredients, ctx.resolution) : null;
+        const targets = ctx.resolution.targets;
+        // Collect reports for the warning (spec 41 §4.4)
+        const reports = [];
+        const scannedHits = [];
+        // Resolve function under primary mode, returns original text when mode is off
+        const resolve = (text, citing) => {
+            if (!primary || !lookup)
+                return text;
+            const { text: resolved, report } = resolveRuleRefs(text, citing, lookup, targets, "agents-md");
+            reports.push(report);
+            return resolved;
+        };
+        // Track whether a file was reworded
+        // Each [original, resolved] pair is one text of the file, compared on its own (spec 41 §4.4)
+        const checkReworded = (path, ...pairs) => {
+            if (primary && pairs.some(([original, resolved]) => original !== resolved))
+                ctx.reportReworded(path);
+        };
+        // Scan a file for unresolved references (spec 41 §4.4): files copied as bytes or other TEXT_EXT
+        const scanFile = (path, content) => {
+            if (!primary || !lookup)
+                return;
+            const text = decodeForScan(content);
+            if (text === null)
+                return; // Binary file
+            const hits = unresolvedRuleRefs(text, lookup, targets, "agents-md");
+            for (const h of hits) {
+                scannedHits.push({ path, line: h.line, name: h.name });
+            }
+        };
+        // An agent's or a command's metadata, then its body (spec 41 §4.4, kiro's order): its frontmatterRaw when it has
+        // one, else its description. With the mode off `resolve` returns each text as given.
+        const resolveDoc = (path, citing, m, rawBody) => {
+            const raw = m.frontmatterRaw != null ? resolve(m.frontmatterRaw, citing) : null;
+            const description = m.frontmatterRaw == null && m.description !== undefined ? resolve(m.description, citing) : m.description;
+            const body = resolve(rawBody, citing);
+            checkReworded(path, [m.frontmatterRaw ?? m.description, raw ?? description], [rawBody, body]);
+            return { raw, description, body };
+        };
         // What this target writes comes from its walk; the matrix decides the rest and warns (spec 18).
         for (const ing of ctx.aimed) {
             const m = ing.meta;
             switch (m.type) {
                 case "rule": {
-                    const body = await ctx.text(ing, m.file);
+                    const rawBody = await ctx.text(ing, m.file);
+                    const body = resolve(rawBody, ing.ref);
+                    const path = ruleFile("claude-code", m);
                     // If frontmatterRaw is set, serialize with it; otherwise emit body only (no generated paths:)
+                    // frontmatterRaw is NOT resolved (spec 41 §4.4)
                     const doc = m.frontmatterRaw != null ? serializeFrontmatter({}, body, { raw: m.frontmatterRaw }) : body;
-                    out.push(await textFile(ctx, ruleFile("claude-code", m), doc, t, ing.ref));
+                    checkReworded(path, [rawBody, body]);
+                    out.push(await textFile(ctx, path, doc, t, ing.ref));
                     break;
                 }
                 case "agent": {
-                    const body = await ctx.text(ing, m.file);
-                    const fm = m.frontmatterRaw ?? null;
-                    const doc = serializeFrontmatter({ name: outName(m), description: m.description, tools: m.tools, model: m.model }, body, { raw: fm });
-                    out.push(await textFile(ctx, `.claude/agents/${outName(m)}.md`, doc, t, ing.ref));
+                    const path = `.claude/agents/${outName(m)}.md`;
+                    const { raw, description, body } = resolveDoc(path, ing.ref, m, await ctx.text(ing, m.file));
+                    const doc = serializeFrontmatter({ name: outName(m), description, tools: m.tools, model: m.model }, body, { raw });
+                    out.push(await textFile(ctx, path, doc, t, ing.ref));
                     break;
                 }
                 case "command": {
-                    const body = await ctx.text(ing, m.file);
-                    const doc = serializeFrontmatter({ description: m.description, "argument-hint": m.argumentHint, "allowed-tools": m.allowedTools }, body, { raw: m.frontmatterRaw ?? null });
-                    out.push(await textFile(ctx, `.claude/commands/${outName(m)}.md`, doc, t, ing.ref));
+                    const path = `.claude/commands/${outName(m)}.md`;
+                    const { raw, description, body } = resolveDoc(path, ing.ref, m, await ctx.text(ing, m.file));
+                    const doc = serializeFrontmatter({ description, "argument-hint": m.argumentHint, "allowed-tools": m.allowedTools }, body, { raw });
+                    out.push(await textFile(ctx, path, doc, t, ing.ref));
                     break;
                 }
                 case "skill": {
                     if (m.layout === "file") {
-                        out.push(await textFile(ctx, `.claude/skills/${outName(m)}.md`, await ctx.text(ing, "SKILL.md"), t, ing.ref));
+                        const path = `.claude/skills/${outName(m)}.md`;
+                        const rawText = await ctx.text(ing, "SKILL.md");
+                        const text = resolve(rawText, ing.ref);
+                        checkReworded(path, [rawText, text]);
+                        out.push(await textFile(ctx, path, text, t, ing.ref));
                     }
                     else {
+                        // Directory skill: resolve .md files, scan others
                         for (const f of await listFiles(ing.dir)) {
                             if (f === "ingredient.yaml")
                                 continue;
-                            out.push(await anyFile(ctx, ing, f, `.claude/skills/${outName(m)}/${f}`, t));
+                            const path = `.claude/skills/${outName(m)}/${f}`;
+                            if (claudeResolves(m, f)) {
+                                const rawText = await ctx.text(ing, f);
+                                const text = resolve(rawText, ing.ref);
+                                checkReworded(path, [rawText, text]);
+                                out.push(await textFile(ctx, path, text, t, ing.ref));
+                            }
+                            else if (TEXT_EXT.test(f)) {
+                                // Other text files: not resolved, but scanned
+                                const rawText = await ctx.text(ing, f);
+                                if (primary && lookup) {
+                                    scanFile(path, Buffer.from(rawText, "utf8"));
+                                }
+                                out.push(await textFile(ctx, path, rawText, t, ing.ref));
+                            }
+                            else {
+                                // Binary files: copied as bytes, scanned
+                                const content = await ctx.bytes(ing, f);
+                                scanFile(path, content);
+                                out.push({ path, content, target: t, ingredient: ing.ref });
+                            }
                         }
                     }
                     break;
                 }
                 case "script":
-                    for (const f of m.files)
-                        out.push(await anyFile(ctx, ing, f, `.claude/scripts/${f}`, t));
+                    for (const f of m.files) {
+                        const path = `.claude/scripts/${f}`;
+                        const file = await anyFileWithScan(ctx, ing, f, path, t, lookup, targets, primary, scanFile);
+                        out.push(file);
+                    }
                     break;
                 case "hook":
-                    for (const f of m.files)
-                        out.push(await anyFile(ctx, ing, f, `.claude/hooks/${f}`, t));
+                    for (const f of m.files) {
+                        const path = `.claude/hooks/${f}`;
+                        const file = await anyFileWithScan(ctx, ing, f, path, t, lookup, targets, primary, scanFile);
+                        out.push(file);
+                    }
                     break;
                 case "mcp":
                     mcp.push(ing); // collected into .mcp.json below
@@ -65,6 +148,10 @@ export const claudeCode = {
                 }
             }
         }
+        // Emit the claude-code warning (spec 41 §4.4)
+        if (primary) {
+            emitClaudeCodeWarning(ctx, reports, scannedHits);
+        }
         const servers = mcpServers(ctx, t, ".mcp.json", mcp);
         if (Object.keys(servers).length) {
             const json = JSON.stringify({ mcpServers: servers }, null, 2) + "\n";
@@ -83,11 +170,79 @@ export const claudeCode = {
         return out;
     },
 };
+/**
+ * Whether the claude-code emitter resolves rule references in this file of an ingredient under agents-md.primary
+ * (spec 41 §4.4): a rule's, an agent's or a command's body file, a file-layout skill's SKILL.md and every `.md` file of a
+ * directory skill. Every other file is copied as written and scanned. An agent's and a command's metadata are resolved
+ * too (`frontmatterRaw` when present, else `description`). The one answer, read by the emitter and by import (§4.10).
+ */
+export function claudeResolves(meta, file) {
+    // Compared as the emitters read them (`emittedFile`): `./rule.md` and `/rule.md` name the file listed as `rule.md`.
+    const eq = (a, b) => path.posix.join(".", a) === path.posix.join(".", b);
+    switch (meta.type) {
+        case "rule":
+        case "agent":
+        case "command":
+            return eq(file, meta.file);
+        case "skill":
+            return meta.layout === "file" ? eq(file, "SKILL.md") : /\.md$/i.test(file);
+        default:
+            return false;
+    }
+}
 /** Files claude-code emits as text, through `ctx.text` (substituted); anything else is copied as raw bytes. */
 export const TEXT_EXT = /\.(md|txt|json|ya?ml|ps1|py|sh|js|ts|cjs|mjs|toml|xml|csv)$/i;
-async function anyFile(ctx, ing, file, relPath, target) {
-    if (TEXT_EXT.test(file))
-        return textFile(ctx, relPath, await ctx.text(ing, file), target, ing.ref);
-    return { path: relPath, content: await ctx.bytes(ing, file), target, ingredient: ing.ref };
+/** Emit a file for scripts/hooks: scan but do not rewrite (spec 41 §4.4). */
+async function anyFileWithScan(ctx, ing, file, relPath, target, lookup, targets, primary, scanFile) {
+    if (TEXT_EXT.test(file)) {
+        const text = await ctx.text(ing, file);
+        if (primary && lookup) {
+            scanFile(relPath, Buffer.from(text, "utf8"));
+        }
+        return textFile(ctx, relPath, text, target, ing.ref);
+    }
+    const content = await ctx.bytes(ing, file);
+    scanFile(relPath, content);
+    return { path: relPath, content, target, ingredient: ing.ref };
+}
+/** Emit the claude-code warning for dead references and scanned files (spec 41 §4.4). */
+function emitClaudeCodeWarning(ctx, reports, scannedHits) {
+    // Collect D entries: dead references (kind not empty, not UNKNOWN_NAME_KIND)
+    // Unknown names produce nothing in claude-code (claude-code is a target, so they are unchanged — state A-like)
+    const dead = [];
+    const seenDead = new Set();
+    for (const report of reports) {
+        for (const e of report.reworded) {
+            if (e.kind === UNKNOWN_NAME_KIND)
+                continue; // Unknown names are unchanged with claude-code
+            const key = `${e.ref}|${e.citing}`;
+            if (!seenDead.has(key)) {
+                seenDead.add(key);
+                dead.push(e);
+            }
+        }
+    }
+    // Dedupe scanned hits by path+line+name
+    const seenScanned = new Set();
+    const dedupedHits = [];
+    // Sort by path then line
+    const sortedHits = [...scannedHits].sort((a, b) => a.path.localeCompare(b.path) || a.line - b.line);
+    for (const h of sortedHits) {
+        const key = `${h.path}:${h.line}:${h.name}`;
+        if (!seenScanned.has(key)) {
+            seenScanned.add(key);
+            dedupedHits.push(h);
+        }
+    }
+    if (dead.length === 0 && dedupedHits.length === 0)
+        return;
+    const parts = [];
+    if (dead.length > 0) {
+        parts.push(formatDeadRefs(dead));
+    }
+    if (dedupedHits.length > 0) {
+        parts.push(formatScannedRefs(dedupedHits));
+    }
+    ctx.warn(`claude-code: ${parts.join("; ")}`);
 }
 //# sourceMappingURL=claude-code.js.map

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package/dist/emitters/kiro.js

@@ -1,7 +1,9 @@
-import { toCrlf } from "../core/text.js";
+import { posix } from "node:path";
+import { climbsOut, toCrlf } from "../core/text.js";
 import { serializeFrontmatter } from "../core/frontmatter.js";
 import { listFiles } from "../core/forge.js";
-import { buildRuleLookup, mcpServers, outName, resolveRuleRefs, ruleFile, RULE_NAME_CHARS, UNKNOWN_NAME_KIND } from "./shared.js";
+import { decodeForScan } from "../core/secrets.js";
+import { appliesTo, buildRuleLookup, effectiveTargets, formatDeadRefs, formatScannedRefs, mcpServers, outName, resolveRuleRefs, ruleFile, RULE_NAME_CHARS, UNKNOWN_NAME_KIND, unresolvedRuleRefs, } from "./shared.js";
 /** Files kiro copies as text, through `ctx.text` (substituted); anything else is copied as raw bytes. */
 export const KIRO_TEXT_EXT = /\.(md|txt|json|ya?ml)$/i;
 /**
@@ -20,17 +22,47 @@ export const kiro = {
         const out = [];
         const t = "kiro";
         const banner = String(ctx.resolution.params["kiro.banner"] ?? "<!-- GENERATED from {{source}} by craftar -- do not edit. -->");
-        const ruleNames = new Set(ctx.resolution.ingredients.filter((i) => i.meta.type === "rule").map((i) => outName(i.meta)));
-        const scopedRules = ctx.resolution.ingredients.filter((i) => i.meta.type === "rule" && i.meta.inclusion === "fileMatch").map((i) => outName(i.meta));
+        const primary = ctx.resolution.primary;
+        // Under the mode, filter ruleNames and scopedRules to rules kiro WRITES (spec 41 §4.5)
+        // Mode off: unchanged (every rule)
+        const rulesKiroWrites = primary
+            ? ctx.resolution.ingredients.filter((i) => i.meta.type === "rule" && appliesTo(effectiveTargets(i.meta, ctx.resolution), "kiro"))
+            : ctx.resolution.ingredients.filter((i) => i.meta.type === "rule");
+        const ruleNames = new Set(rulesKiroWrites.map((i) => outName(i.meta)));
+        const scopedRules = rulesKiroWrites.filter((i) => i.meta.type === "rule" && i.meta.inclusion === "fileMatch").map((i) => outName(i.meta));
         const targets = ctx.resolution.targets;
-        const lookup = buildRuleLookup(ctx.resolution.ingredients);
+        const lookup = buildRuleLookup(ctx.resolution.ingredients, ctx.resolution);
+        // For mode-off comparison (spec 41 §4.4), build lookup without primary
+        const lookupOff = primary ? buildRuleLookup(ctx.resolution.ingredients, { primary: false }) : null;
         // Collect reports for the warning (spec 17 §4.5)
         const reports = [];
+        // Scanned file hits (spec 41 §4.4)
+        const scannedHits = [];
         const resolve = (text, citing) => {
             const { text: resolved, report } = resolveRuleRefs(text, citing, lookup, targets, "kiro");
             reports.push(report);
             return resolved;
         };
+        // Track reworded: each text of the file, resolved with the mode and without it (spec 41 §4.4)
+        const checkReworded = (path, texts, citing) => {
+            if (!primary || !lookupOff)
+                return;
+            const differs = (text) => resolveRuleRefs(text, citing, lookupOff, targets, "kiro").text !== resolveRuleRefs(text, citing, lookup, targets, "kiro").text;
+            if (texts.some(differs))
+                ctx.reportReworded(path);
+        };
+        // Scan a file for unresolved references (spec 41 §4.4)
+        const scanFile = (path, content) => {
+            if (!primary)
+                return;
+            const text = decodeForScan(content);
+            if (text === null)
+                return; // Binary
+            const hits = unresolvedRuleRefs(text, lookup, targets, "kiro");
+            for (const h of hits) {
+                scannedHits.push({ path, line: h.line, name: h.name });
+            }
+        };
         const mcp = [];
         // What this target writes comes from its walk; the matrix decides the rest and warns (spec 18).
         // `ctx.resolution.ingredients` above is for lookups only.
@@ -38,12 +70,15 @@ export const kiro = {
             const m = ing.meta;
             switch (m.type) {
                 case "rule": {
-                    const body = resolve(await ctx.text(ing, m.file), ing.ref);
+                    const rawBody = await ctx.text(ing, m.file);
+                    const body = resolve(rawBody, ing.ref);
+                    const path = ruleFile("kiro", m);
+                    checkReworded(path, [rawBody], ing.ref);
                     const fm = m.inclusion === "fileMatch"
                         ? `---\ninclusion: fileMatch\nfileMatchPattern: ${JSON.stringify(Array.isArray(m.fileMatchPattern) ? m.fileMatchPattern.join(",") : m.fileMatchPattern ?? "**")}\n---\n\n`
                         : `---\ninclusion: ${m.inclusion}\n---\n\n`;
                     const head = banner.replace("{{source}}", `.claude/rules/${outName(m)}.md`) + "\n\n";
-                    out.push(crlf(ruleFile("kiro", m), fm + head + body, ing.ref));
+                    out.push(crlf(path, fm + head + body, ing.ref));
                     break;
                 }
                 case "steering":
@@ -51,38 +86,80 @@ export const kiro = {
                     out.push(crlf(`.kiro/steering/${outName(m)}.md`, await ctx.text(ing, m.file), ing.ref));
                     break;
                 case "agent": {
+                    const path = `.kiro/agents/${outName(m)}.json`;
                     // Resolve description first, then body (spec 17 §4.5 order: description before prompt)
-                    const description = resolve(m.description ?? "", ing.ref);
+                    const rawDesc = m.description ?? "";
+                    const description = resolve(rawDesc, ing.ref);
                     // Read the body once and derive both versions from it
                     const rawBody = await ctx.text(ing, m.file);
                     const body = resolve(rawBody, ing.ref);
+                    checkReworded(path, [rawDesc, rawBody], ing.ref);
                     const tools = mapTools(m.tools, ctx);
                     // agentResources reads the blanket-rewritten text, not the resolved text (spec 17 §4.6)
-                    const resources = m.resources ?? agentResources(outName(m), rewrite(m.description ?? "") + "\n" + rewrite(rawBody), ruleNames, scopedRules);
+                    const resources = m.resources ?? agentResources(outName(m), rewrite(rawDesc) + "\n" + rewrite(rawBody), ruleNames, scopedRules);
+                    // Under the mode, record hand-written resources for the check (spec 41 §4.5)
+                    if (primary && m.resources) {
+                        for (const entry of m.resources) {
+                            if (!entry.startsWith("file://"))
+                                continue;
+                            const raw = entry.slice("file://".length);
+                            // Skip globs
+                            if (/[*?[{]/.test(raw))
+                                continue;
+                            // Compared as a path (`.kiro/steering/./x.md` is `.kiro/steering/x.md`); one that climbs out of the workspace
+                            // names nothing the plan can write and is never looked up on disk.
+                            if (climbsOut(raw))
+                                continue;
+                            const rel = posix.normalize(raw);
+                            // Only check .kiro/steering/, .claude/rules/, or AGENTS.md
+                            if (rel.startsWith(".kiro/steering/") || rel.startsWith(".claude/rules/") || rel === "AGENTS.md") {
+                                ctx.reportKiroResource(outName(m), rel);
+                            }
+                        }
+                    }
                     const json = JSON.stringify({ name: outName(m), description, prompt: body.replace(/^\n+/, "").replace(/\n+$/, ""), tools, allowedTools: tools, resources }, null, 2) + "\n";
-                    out.push(crlf(`.kiro/agents/${outName(m)}.json`, json, ing.ref));
+                    out.push(crlf(path, json, ing.ref));
                     break;
                 }
                 case "command": {
+                    const path = `.kiro/steering/commands/${outName(m)}.md`;
+                    const rawBody = await ctx.text(ing, m.file);
                     // Resolve description and raw frontmatter first, then body (spec 17 §4.5 order: frontmatter before body)
                     // When frontmatterRaw is set, the description field is unused (serializeFrontmatter ignores it),
                     // so we skip resolving it to avoid spurious reports.
                     const resolvedDescription = !m.frontmatterRaw && m.description !== undefined ? resolve(m.description, ing.ref) : undefined;
                     const resolvedFm = m.frontmatterRaw ? resolve(m.frontmatterRaw, ing.ref) : null;
-                    const body = resolve(await ctx.text(ing, m.file), ing.ref);
+                    const body = resolve(rawBody, ing.ref);
+                    checkReworded(path, [m.frontmatterRaw ? m.frontmatterRaw : (m.description ?? ""), rawBody], ing.ref);
                     const doc = serializeFrontmatter({ description: resolvedDescription, "argument-hint": m.argumentHint, "allowed-tools": m.allowedTools }, body, { raw: resolvedFm });
-                    out.push(crlf(`.kiro/steering/commands/${outName(m)}.md`, `---\ninclusion: manual\n---\n\n` + doc, ing.ref));
+                    out.push(crlf(path, `---\ninclusion: manual\n---\n\n` + doc, ing.ref));
                     break;
                 }
                 case "skill": {
                     if (m.layout === "file") {
-                        out.push(crlf(`.kiro/skills/${outName(m)}/SKILL.md`, resolve(await ctx.text(ing, "SKILL.md"), ing.ref), ing.ref));
+                        const path = `.kiro/skills/${outName(m)}/SKILL.md`;
+                        const rawText = await ctx.text(ing, "SKILL.md");
+                        const text = resolve(rawText, ing.ref);
+                        checkReworded(path, [rawText], ing.ref);
+                        out.push(crlf(path, text, ing.ref));
                     }
                     else {
                         for (const f of await listFiles(ing.dir)) {
                             if (f === "ingredient.yaml")
                                 continue;
-                            out.push(await copy(ctx, ing, f, `.kiro/skills/${outName(m)}/${f}`, resolve));
+                            const path = `.kiro/skills/${outName(m)}/${f}`;
+                            if (KIRO_TEXT_EXT.test(f)) {
+                                const rawText = await ctx.text(ing, f);
+                                const text = resolve(rawText, ing.ref);
+                                checkReworded(path, [rawText], ing.ref);
+                                out.push(crlf(path, text, ing.ref));
+                            }
+                            else {
+                                // Binary file: scan but don't rewrite (spec 41 §4.4)
+                                const content = await ctx.bytes(ing, f);
+                                scanFile(path, content);
+                                out.push({ path, content, target: t, ingredient: ing.ref });
+                            }
                         }
                     }
                     break;
@@ -97,8 +174,8 @@ export const kiro = {
                 }
             }
         }
-        // Emit one warning for all dead and unknown references (spec 17 §4.5)
-        emitKiroWarning(ctx, reports);
+        // Emit one warning for all dead and unknown references (spec 17 §4.5) and scanned files (spec 41 §4.4)
+        emitKiroWarning(ctx, reports, scannedHits);
         const servers = mcpServers(ctx, t, ".kiro/settings/mcp.json", mcp);
         if (Object.keys(servers).length) {
             out.push(crlf(".kiro/settings/mcp.json", JSON.stringify({ mcpServers: servers }, null, 2) + "\n", "mcp/*"));
@@ -106,8 +183,8 @@ export const kiro = {
         return out;
     },
 };
-/** Emit the kiro warning for dead and unknown references (spec 17 §4.5). */
-function emitKiroWarning(ctx, reports) {
+/** Emit the kiro warning for dead, unknown references, and scanned files (spec 17 §4.5, spec 41 §4.4). */
+function emitKiroWarning(ctx, reports, scannedHits = []) {
     // Collect entries: D (has kind with "reaches no target") and unknown (empty kind)
     const dead = [];
     const unknown = [];
@@ -132,12 +209,22 @@ function emitKiroWarning(ctx, reports) {
             }
         }
     }
-    if (dead.length === 0 && unknown.length === 0)
+    // Dedupe scanned hits by path+line+name, sort by path then line
+    const seenScanned = new Set();
+    const dedupedHits = [];
+    const sortedHits = [...scannedHits].sort((a, b) => a.path.localeCompare(b.path) || a.line - b.line);
+    for (const h of sortedHits) {
+        const key = `${h.path}:${h.line}:${h.name}`;
+        if (!seenScanned.has(key)) {
+            seenScanned.add(key);
+            dedupedHits.push(h);
+        }
+    }
+    if (dead.length === 0 && unknown.length === 0 && dedupedHits.length === 0)
         return;
     const parts = [];
     if (dead.length > 0) {
-        const entries = dead.map((e) => `${e.ref} (in ${e.citing}; ${e.kind})`).join(", ");
-        parts.push(`${dead.length} reference(s) to rule files this workspace does not have — reworded: ${entries}`);
+        parts.push(formatDeadRefs(dead));
     }
     if (unknown.length > 0) {
         const entries = unknown.map((e) => `${e.ref} (in ${e.citing})`).join(", ");
@@ -148,6 +235,9 @@ function emitKiroWarning(ctx, reports) {
             parts.push(`${unknown.length} reference(s) to names that are no rule or steering of this workspace — rewritten to .kiro/steering/ as before: ${entries}`);
         }
     }
+    if (dedupedHits.length > 0) {
+        parts.push(formatScannedRefs(dedupedHits));
+    }
     ctx.warn(`kiro: ${parts.join("; ")}`);
 }
 export function rewrite(text) {
@@ -156,11 +246,6 @@ export function rewrite(text) {
 function crlf(path, text, ingredient) {
     return { path, content: Buffer.from(toCrlf(text), "utf8"), target: "kiro", ingredient };
 }
-async function copy(ctx, ing, file, relPath, resolve) {
-    if (KIRO_TEXT_EXT.test(file))
-        return crlf(relPath, resolve(await ctx.text(ing, file), ing.ref), ing.ref);
-    return { path: relPath, content: await ctx.bytes(ing, file), target: "kiro", ingredient: ing.ref };
-}
 const TOOL_MAP = {
     read: "read",
     grep: "grep",