Also would a basic rom file be named after the PCB? so if the prg and chr weren't split the file would be HVC-CNROM-256K-01.bin
This is not how ROM are named on the PCB.
ex: http://bootgod.dyndns.org:7777/profile.php?id=2529
PAL-MW-0 PRG
NES-MW-0 CHR
They could be named:
PAL-MW-0.PRG
NES-MW-0.CHR
But for now it is unclear whether Nestopia will use split or joined images.