If it is running right then you have probably got it solved. Is your bike EFI or carbed? Check all the things you replaced, disconnected, airbox plug etc just to be sure.

Cheers, Richard
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09 America, Staintune Pipes, K&N, Breathe, Hagon Nitros, AI & O2 removed, tune 20184 (modified), MTX-L a/f gauge