I was tagging an album (The Beatles, Anthology 3). When done, I found that six or seven of the tracks had the metadata of a different track from the same album. When I viewed online->this acoustid, it was apparent that these acoustids each linked to two different recordings on the album. One of the links had 80 or so sources and the other had 1 source. I went onto Musicbrainz and I unlinked the obviously incorrect link. I retagged those files, and that fixed the problem.
I realize that Jaikoz can only be as accurate as the information provided by Musicbrainz/AcoustID. However, it seemed Jaikoz used the incorrect links to match the files, and ignored the other clues such as filename. I only discovered the problem because I listened to a track and realized the audio didn’t match the metadata.