I'm sorry to hear the clunk fix doesn't totally cure it. Nonetheless, I'd still like to know the TSB number & description. Some photos would be great, too.
Exhaust fumes most likely are from a loose exhaust clamp.
From another site:
"Try this. Looking at the passenger side top of the engine, you will see a bell crank pulley with 2 cables attached to it. Sort of looks like a throttle and cable linkage. This pulley is attached to a tube, which I think could be an EGR tube? Where this tube (pipe) connects and sort of hidden behind turbo pipe there is a V band clamp. There are a few of these clamps on this pipe if you follow it around to the drivers side. Tighten these clamps with a 11mm or 7/16th box wrench. Mine were surprisingly loose and there was exhaust soot near that cable linkage area.
Haven't smelled any more fumes since I did this."
or
"I have been smelling fumes every once in a while and just figured it was other vehicles. So I'm pulling in my driveway this evening and smell raw fuel in the cab very bad. So I get out and smell exhaust... No fumes.. Gotta be a leak. Let's just say the guy putting on exhaust clamps forgot to tighten at all. Both turbo clamps were loose and had black carbon all over. Tightened those and went ahead and tightened the egr tube clamps also... Problem solved. It is a deep 7/16 for all these clamps."