I had similar problems after replacing all of the brass bits with OEM items. I am running with about 1 1/4 turns on the pilot air screw. The problem has been more noticeable now they are watering down the fuel with ethanol. Aside from the fuel quality issues these bikes need to run a little rich around idle because there is no kick down or throttle pump. When you open the throttle, sometimes too quickly the vacuum drops away a little and less fuel is drawn up through the metering system so the bike tends to stumble. Up to about 1/8 throttle this is the pilot circuit.
With my bike, running the idle mixture at 1 1/2 to 2 turns I can feel it holding back if I try to maintain constant speed
at about 2000 rpm in a low gear. Try giving it 1/4 to half choke and see if it gets better.
Dave