I am building and Arcade cabinet and the joystick/buttons are all mapped as a generic joystick. They work in the NES and Super NES cores, but if I load a N64 or Gamecube I loose the joystick controls. Buttons all still work fine and the hotkeys work. If I open up the menu in RA the joystick works fine there just not in these mentioned cores.
I have tried to remap the controller and update the effected cores with no luck.