Thanks!

@avengerfishing Use the RetroPie-Setup script and reset your controllers - https://retropie.org.uk/docs/EmulationStation/#controller-configs. Restart and then try to map your gamepad in Emulationstation.

@aryetis
I'm seeing this in the console output:
evdev: Found 'Xbox Gamepad (userspace driver)' at '/dev/input/event17'
evdev: reading mapping file: 'controller_xboxdrv.cfg'

so from what I can tell it's using evdev and loading my gamepad at /dev/input/event17 which is the xbox gamepad defined in xboxdrv

For anyone else having this issue:

I'm still not sure what caused it. But I "fixed" it by downloading 4.2 and doing a fresh install.

@PeterNL070 as long as it isn't a play and charge cable

@edmaul69 I'll check it out tonight when I get home from work and thanks for all the help I've played with linux before but this is my first pi.

You might want to check out this thread: https://retropie.org.uk/forum/topic/2565/retropie-psx-emulator-only-1-controller-works/22

I am running original PSX/PS2 controllers on a dual PSX adapter, so it doesn't seem to be affected by the problem you are seeing (that or my configs are just really old and not affected).

@Obmug If using a rpi3, you will do better to use lr-mame2003 as it's the most developed and supports more games.