Neogeo pifba y-axis up and down inverted

[Namor]

Raspberry pi 3 - Retropie 4.1.5
Runned "Update all installed packages".
Joystick detected as "DragonRiseInc.GenericUSBJoystick", works well with emulationstation and Mame but on Amiga and Neogeo y-axis didn't work.

Fixed it on Neogeo, changing
JA_LR=3
JA_UD=0
to
JA_LR_1=3
JA_UD_1=0
in /opt/retropie/configs/fba/fba2x.cfg

Now y-axis is recognized but up and down are inverted.
After many checks on config files I did the following test:
run the "CONFIGURE INPUT" in emulationstation and swapped them, pressing 'down' when prompted for up and 'up' for down.
After that, on emulationstation up and down are inverted, and I expected them to work well in Neogeo, but they don't, they are still inverted. there too
Checked in /opt/retropie/configs/fba/retroarch.cfg and /opt/retropie/configs/neogeo/retroarch.cfg, there are no overrides so I think the current configuration is /opt/retropie/configs/all/retroarch.cfg which has
input_player1_up_axis = +0
input_player1_down_axis = -0

• and - are correct, I checked with jstest /dev/input/js0
  but even swapping them doesn't fix it.