fix(extensions): route print mode through buildResourceLoader

Print mode was constructing DefaultResourceLoader directly, which
bypassed the GSD extension registry filter and let disabled bundled
extensions leak through. With the community @0xkobold/pi-ollama
installed, every `gsd -p` invocation printed an /ollama command
conflict because the bundled ollama extension (explicitly disabled
in ~/.gsd/extensions/registry.json) was still being loaded.

- Add extension-manifest.json for the bundled ollama extension so the
  registry's id-keyed disable entry can actually target it.
- Extend buildResourceLoader() with an options bag for print-mode
  callers (additionalExtensionPaths, appendSystemPrompt).
- Switch print mode to buildResourceLoader() so the registry filter
  (extensionPathsTransform) runs in both TUI and print paths.

Also fix a stderr leak in the GSD codebase-generator: execSync("git
ls-files") was inheriting stderr to the parent, so running gsd from a
non-repo cwd (e.g. $HOME) printed "fatal: not a git repository" before
the catch silently returned []. Pipe stderr so it lands in the thrown
Error instead.

Co-Authored-By: Claude Opus 4.6 (1M context) <noreply@anthropic.com>

src/cli.ts

@@ -544,8 +544,12 @@ if (isPrintMode) {
   exitIfManagedResourcesAreNewer(agentDir)
   initResources(agentDir)
   markStartup('initResources')
-  const resourceLoader = new DefaultResourceLoader({
-    agentDir,
+  // Route print mode through buildResourceLoader so the GSD extension registry
+  // filter (extensionPathsTransform) is applied consistently with TUI mode.
+  // Constructing DefaultResourceLoader directly bypassed the filter and let
+  // disabled bundled extensions (e.g. `ollama` superseded by `@0xkobold/pi-ollama`)
+  // leak through and emit `/ollama` command conflicts on every print invocation.
+  const resourceLoader = buildResourceLoader(agentDir, {
     additionalExtensionPaths: cliFlags.extensions.length > 0 ? cliFlags.extensions : undefined,
     appendSystemPrompt,
   })

src/resource-loader.ts

@@ -1,4 +1,5 @@
 import { DefaultResourceLoader, sortExtensionPaths } from '@gsd/pi-coding-agent'
+if (process.env.GSD_DEBUG_EXTENSIONS) process.stderr.write("[gsd-debug] resource-loader.ts loaded\n")
 import { createHash } from 'node:crypto'
 import { homedir } from 'node:os'
 import { chmodSync, copyFileSync, cpSync, existsSync, lstatSync, mkdirSync, openSync, closeSync, readFileSync, readlinkSync, readdirSync, rmSync, statSync, symlinkSync, unlinkSync, writeFileSync } from 'node:fs'
@@ -730,7 +731,22 @@ function getBundledExtensionKeys(): Set<string> {
   return _bundledExtensionKeys
 }
 
-export function buildResourceLoader(agentDir: string): DefaultResourceLoader {
+/**
+ * Optional overrides passed through to DefaultResourceLoader. Print mode
+ * needs these — it used to construct DefaultResourceLoader directly, which
+ * bypassed buildResourceLoader's extensionPathsTransform (= the GSD registry
+ * filter) and let disabled bundled extensions like `ollama` leak through and
+ * conflict with community replacements such as `@0xkobold/pi-ollama`.
+ */
+export interface BuildResourceLoaderOptions {
+  additionalExtensionPaths?: string[]
+  appendSystemPrompt?: string
+}
+
+export function buildResourceLoader(
+  agentDir: string,
+  options: BuildResourceLoaderOptions = {},
+): DefaultResourceLoader {
   const registry = loadRegistry()
   const piAgentDir = join(homedir(), '.pi', 'agent')
   const piExtensionsDir = join(piAgentDir, 'extensions')
@@ -743,19 +759,30 @@ export function buildResourceLoader(agentDir: string): DefaultResourceLoader {
       return isExtensionEnabled(registry, manifest.id)
     })
 
+  // Print-mode callers pass their own additional extension paths (e.g. --extension
+  // flags). Non-print mode uses the implicit pi-extensions discovery above.
+  const additionalExtensionPaths =
+    options.additionalExtensionPaths && options.additionalExtensionPaths.length > 0
+      ? options.additionalExtensionPaths
+      : piExtensionPaths
+
   return new DefaultResourceLoader({
     agentDir,
-    additionalExtensionPaths: piExtensionPaths,
+    additionalExtensionPaths,
+    appendSystemPrompt: options.appendSystemPrompt,
     bundledExtensionKeys: bundledKeys,
     extensionPathsTransform: (paths: string[]) => {
-      // 1. Filter community extensions through the GSD registry
+      // Filter community + bundled extensions through the GSD registry so
+      // explicitly-disabled entries (e.g. bundled `ollama` superseded by
+      // `@0xkobold/pi-ollama`) never reach the runtime and trigger command
+      // conflicts.
       const filteredPaths = paths.filter((entryPath) => {
         const manifest = readManifestFromEntryPath(entryPath)
         if (!manifest) return true // no manifest = always load
         return isExtensionEnabled(registry, manifest.id)
       })
 
-      // 2. Sort in topological dependency order
+      // Sort in topological dependency order
       const { sortedPaths, warnings } = sortExtensionPaths(filteredPaths)
 
       return {

src/resources/extensions/gsd/codebase-generator.ts

@@ -199,7 +199,16 @@ function shouldExclude(filePath: string, excludes: string[]): boolean {
 
 function lsFiles(basePath: string): string[] {
   try {
-    const result = execSync("git ls-files", { cwd: basePath, encoding: "utf-8", timeout: 10000 });
+    // stdio: "pipe" captures stderr into the thrown Error instead of
+    // inheriting it to the parent. Without it, running gsd from a non-repo
+    // cwd (e.g. `$HOME`) leaks a "fatal: not a git repository" line to the
+    // user's terminal before the catch silently falls through to [].
+    const result = execSync("git ls-files", {
+      cwd: basePath,
+      encoding: "utf-8",
+      timeout: 10000,
+      stdio: ["ignore", "pipe", "pipe"],
+    });
     return result.split("\n").filter(Boolean);
   } catch {
     return [];

src/resources/extensions/ollama/extension-manifest.json

@@ -0,0 +1,11 @@
+{
+  "id": "ollama",
+  "name": "Ollama",
+  "version": "1.0.0",
+  "description": "Local Ollama model discovery and /ollama command",
+  "tier": "bundled",
+  "requires": { "platform": ">=2.29.0" },
+  "provides": {
+    "commands": ["ollama"]
+  }
+}