It looks like that since only the 2/1/3 version combination is fine, but are the PPU2 bug fixes known?
I only know about 4 version combinations: 1/1/1, 2/1/1, 2/1/2 and 2/1/3.
If it's only a PPU2 bug affecting those pins, Star Fox and SGB1 wouldn't work either on those systems, which I seriously doubt.