OH! Batch encoding. Sorry, I read that too fast. Don't mind me.

For batch encoding in Windows I used RazorLame. Haven't had a Windows machine in quite a while, so I can't say for sure if it is still the best option.

Then, of course, you'd have to go back and create the tags from the file name, unless they've added that option to RazorLame lately.
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Donato
MkII/080000565
MkIIa/010101253
ricin.us