fix: keep only source-map extracted node_modules, exclude pnpm artifacts

Restore node_modules to exact state from cli.js.map extraction:
- Move .ignored/ and .ignored_* files back to original package paths
- Remove pnpm symlinks (replaced by real source-map directories)
- Update .gitignore: only exclude /dist/, .pnpm/, .bin/, .ignored* dirs
- All package dist/ folders are now preserved as part of source-map files

After clone, run `pnpm install` to get pnpm-managed symlinks for building.
The committed node_modules contains the original TypeScript/JS source files
as bundled in cli.js.

claude-code-source/node_modules/lodash-es/stubArray.js

@@ -0,0 +1,23 @@
+/**
+ * This method returns a new empty array.
+ *
+ * @static
+ * @memberOf _
+ * @since 4.13.0
+ * @category Util
+ * @returns {Array} Returns the new empty array.
+ * @example
+ *
+ * var arrays = _.times(2, _.stubArray);
+ *
+ * console.log(arrays);
+ * // => [[], []]
+ *
+ * console.log(arrays[0] === arrays[1]);
+ * // => false
+ */
+function stubArray() {
+  return [];
+}
+
+export default stubArray;