Sorry - to be at least a little more specific: that's a USB keyboard HID limitation, 6 keypresses at a time. Granted, if you only have a 1 player setup, this is not really an issue. It comes more into play when you have two or more simultaneous players on a game that requires multiple buttons\joystick maneuvers like Street Fighter, etc...
Theorectically, if you did put two keyboards in there, I would think you could double your "limit" - definitely something to try.
How many panels are you planning? It sounds like you will have a similar setup as me. I have a GPWiz for each swappable panel, except for my "Tron" panel - which has a spinner\trackball\joystick (i.e. optical interface + USB joy instead).
You may want to optimize controls to reduce the number of panels, and the number of interfaces required.
Or, you could do a funky setup like this:
http://www.beersmith.com/mame/Make sure to post a project announcement, and take lots of pictures!