When you first rez something from any part of your kitchen, it may not clear from the menu. If so, manually delete that first item that rezzes. After that you can use the menu to clear and rez all items. Fast method: shift-select each item that does not clear from the menu and delete them all at once.
If at any point you notice anything that has failed to clear, just delete it manually. Also see the Troubleshooting page of this site.