it could be several things..
hows the batteries?
could be a lazy injector..
I would normally say take the tuner out..but you did that..
does it smoke any while trying to start it?
what oil are you running?
could be a multitude of things..EGR cooler or injector. whats the smoke smell like?
certainly.
fuel smell is normally and injector.
.
sounds like..by the rough idle..a stuck spool valve.