This is the way i did it, i'm sure there is a better way.
First, make your gunner .cfg, then apply it in game, go to your promod 3 folder, copy, paste and name it something easy to remember like "gun.cfg", then make sure it's in the promod 3.0 folder!! Then, go in game and make your jedi .cfg, same process as above, name it something easy to remember.
After you have all your cfgs, while in game open the console and type /exec x.cfg where x is what you called your cfg. You can try binding that to a buttion but it doesnt seem to work for me...