Gryphin, yes you can. All a neo-standard compliant ship set does is have extra pictures in it. If the mod does not support the extra pictures, they don't do anything.
Dogscoff, here are the extra images I have used, though some are already in the NeoStandard.
Scout
Cutter
Corvette
Frigate thru Cruiser have a Light and Heavy Version
Baseship
CarrierEscort
CarrierFleet
CargoStation
SpaceFortress
WarStation
TransportHuge
WeapPlatformHuge
All of the Fighters in the mod are:
FighterOrbital
FighterAttack
FighterInterceptor
FighterHeavyInterceptor
FighterBomber
FighterHeavyBomber
All of the troops in the mod are:
Infantry
Light Mechanized
Heavy Mechanized
Small Battle Mecha
Medium Battle Mecha
Large Battle Mecha