I havent tried to run ISBoxer without Jamba. I dont fully understand why you would WANT that. You should check your ISBoxer setup. See who your "leader" is, and if you press ALT+F, does it always go to that toon? i dunno.

I think its safe to state there is something in your profile or keybinds that you have wrong.

If it were me, I would reset EVERYTHING to default, get it working as intended, then go back and re-do keybinds... testing along the way, until I find the item(s) thats screwy. (Assuming of course that ISBoxer profile is correct to begin with)