I don't know if Trader's Little Helper runs under WINE or whatever but you can create a set of fingerprints by cd'ing to the directory containing your FLAC files and running:
$ metaflac --show-md5sum *.flac > ffp.txt
Assuming you have metaflac installed of course
Obviously you should have the resultant file named something more specific than ffp.txt but I'm sure you get the general idea.
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