The troy.eac3 should be ok. It works right?
"Track is not clean" means there are corupted/bad frames in the track. Use delaycut version 1.3.0.0, which supports eac3. Search the forum to find it. Try the fix option. If you get a few errors, you either let it corect them, or cut a piece of the specific erroneous part and send me again. If it reports too many errors, maybe re-ripping the disc (if you have it) does the trick. But one step at a time.
I am not hero. I am just around here. Doom9 is a great school.
EDIT: You found delaycut!