First, to wheelie without any effort drop one tooth on the front sprocket. Regearing is the easiest and cheapest performance mod you can do.
As far as jetting, The 2G airbox sucks, its too small and restrictive. The 2G frame redesign restricted the volume of the airbox due to the revised frame downtubes.
I had the Ivan's kit (airbox mod, Yosh pipe) on my '05 and was never able to get the jetting spot-on. Your off idle stumble is in the mixture screw/pilot circuit range. 4 turns out was the best setting for me, it was OK but a 10-15 degree change in ambient temp would either cause a low speed stumble (too rich) or a slight backfire thru the carbs (too lean). I finally had enough and shucked the stock carbs and airbox.
If I was to do it again, I would go with the HS stage 2 kit and pods right from the start. I think getting rid of the airbox solves a lot of the problem and makes jetting easier and less sensative to temp changes.
Some guys are happy with the Ivan's kit , maybe I am just a perfectionist, but it was not a good enough setup for me.
Good Luck, Ed.