Bootstrapper and Setup in Add/Remove Programs

Bootstrapper and Setup in Add/Remove Programs

I have a custom bootstrapper CustomBA and an application setup AppSetup.
I only want the AppSetup to be visible in the Add/Remove Programs so I
removed the name of the Bootstrapper. This ensures that it is not there in
the Add/Remove Programs.
I have a custom uninstaller for the AppSetup which is called from a
program menu shortcut. This however does not remove the Bootstrapper entry
in the Registry.
Should I add a custom action to remove the bootstrapper registry entry or
is there a more direct approach?