> What changes have been made to the freshly updated GoodNES dat?

Redid it on an existing collection. Since the files need headers, your collection might have different checksums. Tough luck ;)

> CRC32s in the GoodPCE dat are now calculated with a deinterleaved database? Or
> the roms are still interleaved and headered?

Ask the datfile author 8)

Roman Scherzer
ClrMamePro