You can try changing the ROMS path as well. I also had zero luck with the NeoGeo emulator and switched over to fba. Here is the es_systems setting that works for me.

PATH=/home/pi/RetroPie/roms/fba
EXTENSION=.zip .ZIP
COMMAND=/home/pi/RetroPie/supplementary/runcommand/runcommand.sh 1 
/home/pi/RetroPie/emulators/pifba/fba2x %ROM%”

I am having limited luck with getting Roms to work and I have found no sources to help me with it :-(