You're going to have to choose a menu item that still exists, such as File. You could also create a custom toolbar button.
The menu item still exist, but is not displayed, but the items on the menu should still be available to JS. You can use the 'exeMenuItem' to run the item to run the hidden item.
You will see the missing executable menu items if you use JS to crate a list of menu items. This will show the menu items that have not been moved to the Tool Well.