Whatever you do, hang on to a copy of that "bad" file so that the Empeg folks can look at it and see what's wrong with it. Their software should not choke, even on an invalid file. It should, at worst, refuse the file on the grounds that it's bad.
But...
Use MP3Trim to examine the file and see if it thinks there's anything fishy about the file. Look in the FAQ section of the BBS for posts regarding MP3 editing utilities for more hints.
My guess is that there's something funny in its tags, such as a corrupted tag, causing Emplode to try to parse the whole file for tag data.
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Tony Fabris