I have the gear whine on my 2002 1100 (18K miles) , in most any gear. I don't believe it happens on acceleration, hard to hear over the Cobra pipes. Just coasting or deceleration. It is the type of gear tooth cut Yamaha uses in the transmission/clutch. It a shame that the motor is that noisey, but they are reliable. Hope yours is nothing more then "normal" or maybe a new clutch.