Problem with THT Arcade 2 players + Gamepads

[Supreme]

Hello, I'm kinda new to the arcade scene and even though I managed to get a running pc inside a Green Gold original arcade cabinet I'm having real problems to configure my setup with extra gamepads.
I have a THT Arcade Console 2 Players USB (Xin-mo card if I'm not mistaken) that works flawless but if I try to add a couple usb gamepads to play SNES or N64 games or even modern pc games everything get messed. Since Windows orders the gamepads before the Joysticks I need to unplug them everytime I want to use my joysticks again.

I tried using JoyToKey to remap all keys from Joy1&2 and then gamepads 1&2 with same key configuration (because inside JoyToKey I can force the order of the devices overriding windows setting) so I can let the gamepads plugged all the time.
My problem is with emulators which automatically recognize my joysticks. For example I've remapped Joy1 "Button0" to keyboard key "1" so if I go to a word file and I press "Button0" windows write the number "1", but once I'm inside an emulator like MAMEUI or Retroarch when I press "Button0" instead of the emulator registering the number "1" they keep registering Button0 or even register both "Button0" and "1" at the same time
This is really pissing me off because I have to plug the gamepads everytime I want to use them and then unplug them to keep using my joysticks :S
Retroarch seems to have options similar to JoyToKey but I'm really noob at this emulator and can't figure it out on my own. Any advice please?