diff --git a/desktop/src-tauri/src/lib.rs b/desktop/src-tauri/src/lib.rs
index f419a761b5..f63a79f465 100644
--- a/desktop/src-tauri/src/lib.rs
+++ b/desktop/src-tauri/src/lib.rs
@@ -499,6 +499,7 @@ pub fn run() {
             // restore_managed_agents_on_launch (which reads managed-agents.json).
             migration::sync_shared_agent_data(&app_handle);
             migration::reconcile_persona_pack_paths(&app_handle);
+            migration::reconcile_provider_mcp_commands(&app_handle);
             migration::migrate_persona_provider_to_runtime(&app_handle);
 
             // Resolve persisted identity key (env var → file → generate+save).