I would certainly say that's your problem. Stock jet is 470(that's what mine is at, I live at 3,000 elevation) and topend is good, but no low end. With all those mods you may need to go more than 470, but put in a 470 and see how it acts is what I would do.(This going by what the Yamaha dealer told me, go back to stock carb and work off of things from there.)
Which brings up a question from me. My spark plug is more on the black side than on the "caramel/chocolate brown" color. What exactly does that mean?
Trikes:
1973 Honda ATC70-orange!
(2)1985 ATC70
1985 Big Red 250
1985 250R