Can you post the file or at least a few lines of it so we can see what your problems are? There are lots of "filter" programs that will clean up "interesting" data, but without more information I can't even give you a good suggestion.
Being a "living relic" that spent years programming on CP/M machines, I'd like to think that I've got a pretty good chance at solving your problem quickly and easily once I know what the problem is!
-PatP