Fix autocomplete popover flicker

packages/app/src/hooks/use-agent-autocomplete.ts

@@ -168,7 +168,7 @@ function resolveAutocompleteIsLoading(args: {
   optionsLength: number;
 }): boolean {
   if (args.mode === "command") {
-    return args.isCommandsLoading;
+    return args.isCommandsLoading && args.optionsLength === 0;
   }
   if (args.mode === "file") {
     return (
@@ -251,7 +251,7 @@ export function useAgentAutocomplete(input: UseAgentAutocompleteInput): AgentAut
   const isConnected = useHostRuntimeIsConnected(serverId);
 
   const mode = resolveAutocompleteMode({ showFileAutocomplete, showCommandAutocomplete });
-  const isVisible = resolveAutocompleteIsVisible({
+  const canShowAutocomplete = resolveAutocompleteIsVisible({
     mode,
     canLoadCommands,
     serverId,
@@ -270,6 +270,8 @@ export function useAgentAutocomplete(input: UseAgentAutocompleteInput): AgentAut
     draftConfig: queryDraftConfig,
   });
 
+  const isVisible = canShowAutocomplete && !(mode === "command" && isCommandsLoading);
+
   const fileSuggestionsQuery = useQuery({
     queryKey: [
       "directorySuggestions",