I have a '99 Ironman, that was ordered in that same year. the problems I've had include:
1) both window regulators and motors changed, 5 trips to the dealer.
2)windshield wiper arms peeling, sanded and repainted myself.
3)headlight gasket flapping in the wind, glued it back myself.
4)CD player, 2 trips to the dealer and still don't have my cd's back.
The dealer gouged my dash while replacing the cd changer. they had some guy refill the gouge and texture it to match
5)hood insert, three trips to the dealer, they didn't order the IRONMAN hood decal for the replacement.
6)wet carpet on drivers side, dealer can't find anything but the damp carpet.
7)headlight lenses cracking, 2 trips to the dealer.
8)batteries, I'm on my third battery,no more oem for me...OPTIMA redtop.
9)transmission, 4 trips to get the shifter adjusted, still not right.