fix(onboard): preserve rerun config migrations

Fix non-interactive and wizard onboarding reruns so existing agent lists and bindings are preserved unless the user explicitly resets config.

Isolate legacy `plugins.installs` migration into its own write so the config size-drop allowance cannot mask unrelated config loss, while preserving new or repaired install records for the final plugin-index commit. Also keep shrinkwrap generation pinned to pnpm-locked transitive patch versions only when the dependency edge still allows that version, and isolate the tooling Vitest shard that mutates process state.

Fixes #84692.
Replaces #84748.

Co-authored-by: yetval <yetvald@gmail.com>

src/cli/plugins-install-record-commit.ts

@@ -28,6 +28,46 @@ function mergeUnsetPaths(
   return merged.length > 0 ? merged : undefined;
 }
 
+export function hasPendingPluginInstallRecords(config: OpenClawConfig): boolean {
+  return Object.keys(config.plugins?.installs ?? {}).length > 0;
+}
+
+export function unchangedPendingPluginInstallRecordIds(
+  config: OpenClawConfig,
+  baseConfig: OpenClawConfig,
+): string[] {
+  const pendingInstalls = config.plugins?.installs ?? {};
+  return Object.entries(baseConfig.plugins?.installs ?? {})
+    .filter(([pluginId, baseInstall]) => isDeepStrictEqual(pendingInstalls[pluginId], baseInstall))
+    .map(([pluginId]) => pluginId);
+}
+
+export function stripPendingPluginInstallRecords(
+  config: OpenClawConfig,
+  pluginIds?: Iterable<string>,
+): OpenClawConfig {
+  if (!pluginIds) {
+    return withoutPluginInstallRecords(config);
+  }
+  const removeIds = new Set(pluginIds);
+  if (removeIds.size === 0 || !config.plugins?.installs) {
+    return config;
+  }
+  const remainingInstalls = Object.fromEntries(
+    Object.entries(config.plugins.installs).filter(([pluginId]) => !removeIds.has(pluginId)),
+  );
+  if (Object.keys(remainingInstalls).length === 0) {
+    return withoutPluginInstallRecords(config);
+  }
+  return {
+    ...config,
+    plugins: {
+      ...config.plugins,
+      installs: remainingInstalls,
+    },
+  };
+}
+
 type ConfigCommit = (
   config: OpenClawConfig,
   writeOptions?: ConfigWriteOptions,
@@ -113,8 +153,7 @@ export async function commitConfigWriteWithPendingPluginInstalls(params: {
   movedInstallRecords: boolean;
   persistedHash: string | null;
 }> {
-  const pendingInstallRecords = params.nextConfig.plugins?.installs ?? {};
-  if (Object.keys(pendingInstallRecords).length === 0) {
+  if (!hasPendingPluginInstallRecords(params.nextConfig)) {
     const committed = params.writeOptions
       ? await params.commit(params.nextConfig, params.writeOptions)
       : await params.commit(params.nextConfig);
@@ -126,6 +165,7 @@ export async function commitConfigWriteWithPendingPluginInstalls(params: {
     };
   }
 
+  const pendingInstallRecords = params.nextConfig.plugins?.installs ?? {};
   const previousInstallRecords = await loadInstalledPluginIndexInstallRecords();
   const nextInstallRecords = {
     ...previousInstallRecords,