All Amigas have the same joystick/mouse-port hardware, so as long as the software supports a CD32 pad, there is no problem.
Via lowlevel.library which was introduced with kick3.1, you can use CD32-pads easily from the os. Actually, lowlevel.library is far from just about CD32-pads, it enables the programmer to in a simple manner read input-devices like keyboard/mouse/joystick, do timing, set some "game-handy" interrupts, and do some system-control.
If you have a game that bangs the metal, and doesnt use lowlevel.library, it can use a CD32 pad on a kick1.3 A500.
/Patrik