Removing some programs from the menu (but not from the flashdrive)?

I have installed some apps on my thumbdrive that aren’t the nicely made paf files so some of them have additional .exe files. The problem is these additional .exe files are needed by the main program but just clutter up the menu. Is there a way I can remove/exclude these superfluous .exe files? Any help would be thoroughly appreciated!

Cheers

-Gaiko