Fuel air ratios mean nothing to me, even though I am an industrial chemist. If you are tuning for performance, best power is just slightly on the rich side of too lean. I would never tune a motor then change the exhaust system afterwards. The exhaust system, ignition advance and comp. ratio need to remain constant while you adjust the jetting. The main jet size is usually irrelevant, as long as it is too rich. Your main concern is your needle jet size and the shape of the needle. When you seek performance, the slightest bit too rich on the needles will take the edge off the motor.
If your motor misses when you ride the bike - stop and raise the needles one notch.
My friend is a champion in an historic racing class. He uses an oxygen sensor to get the jetting right, then while his bike is on the dyno, he advances the ignition timing until he gets maximum torque.