if PMA has incorrectly analyzed one of your files, the best thing I have found through trial and error to do is put it through an editor like Soundforge, eliminate any silence at beginning and end, then re-encode it with a higher bit rate unless it is already at 320, or a constant bit rate if it is VBR. then rename the file, delete the old file and transfer.
for me, at least 8/10 times this corrects the issue.