One thing to consider is the type of jets you are using. Are they genuine Keihin parts or knockoffs?
As Ed stated, that's a lot of fuel for basically a stock intake with snorkel removed and bell mouth installed. Is it the Breath Bell mouth from TTP? Are you getting any kind of popping on decel?
With my ride (03 America) I had the straight through TORs installed along with a UNI filter, all 3 snorkels removed and opened up the filter retainer on top. I didn't drill out the bottom of the air box. I ended up with 135 mains, 42 pilots (never felt the need to change even though I had 45s available), Thunderbird needles with 1 shim and around 2.5 turns on the mixture adjustment screws. Plugs eventually ran a tan colour but you could smell that it was running rich at idle. No decel popping but I disconnected my Throttle Position sensor also which helped that a lot. FWIW.
