CleanRip always giving bad rips

[einsteinsci]

For some reason, I always get bad rips of discs from CleanRip on my Wii. CleanRip says the MD5 is verified, but when I verify the same checksum on my computer, I get a completely different checksum, and sure enough, I reach a spot in the game where it always will freeze (and dolphin verifying the partition integrity will always have trouble on one of the partitions). While most games are still playable (Brawl), other games (Sonic Colors, Super Mario Galaxy) freeze somewhere towards the beginning of the game. I've tried updating to CleanRip 2.0.0, with the same freeze occuring in SMG (intro clip). The CleanRip ZIP had the same SHA1 checksum from the site. I've formatted my USB as NTFS (Quick format is OFF) so that I don't have the file split into chunks. Where do I go from here?