he said he has troubles with it at idle, which don't have sh*t to do with the main jet, but the main should have been bumped to around a 250 for the missing airbox lid, and possibly one more size up for this cold weather and the oil injection delete
but he's not reporting troubles at 3/4 to wide open throttle, which is the only place the main jet effects, the pilot and needle/clip position will never need changed on all but the most heavily modded blasters with a stock carb
is the air filter clean ????? whens the last time it had a new spark plug installed ???
also are you using the choke when starting it for warm up ???, are you actually letting it warm up before riding it ????
i'd say turn up the big idle screw under the seat a little and see if that helps, then try adjusting the air/fuel screw to adjust the idle to it's highest rpm's, hopefully thats less than 2 turns out, 1 1/2 out being the norm, then readjust the big idle screw under the seat
if the problem continues at idle, i'd say a carb cleaning/rebuild, and leakdown test are needed
and heres my opinion on mods........suspension first, pipe/filter, brakes, then motor work