I guess this is a known issue for FPSE 0.09
It does not support anykind of GamePad (yet) officially. 0.09 only emulates PSX Gamepad thru Keyboard - next 10.0 release perhaps?
With Joy0 plugin (there is JoY version 1.1 available 2 download if you havent got it yet) - is only experimental (so it will work on some games, while some games will rejects it.) and not guaranteed to work with any games and i think it is not supported by FPSE team too (?)
So I guess either you have to stick with VGS and ePSXe for good GamePad support, or wait until the next FPSE 10.0 out
It does not support anykind of GamePad (yet) officially. 0.09 only emulates PSX Gamepad thru Keyboard - next 10.0 release perhaps?
With Joy0 plugin (there is JoY version 1.1 available 2 download if you havent got it yet) - is only experimental (so it will work on some games, while some games will rejects it.) and not guaranteed to work with any games and i think it is not supported by FPSE team too (?)
So I guess either you have to stick with VGS and ePSXe for good GamePad support, or wait until the next FPSE 10.0 out