Seems we missed this post at first.
Anyways, Were clearances tighter than spec? That would cause problems once everything warmed up all the way. Tight valves are bad. So they must be within spec.
What is your air intake like? Is it the stock box and filter or are there pods on it?
I would pull the plugs and see what color they are. it would give an indication of either too lean or too rich.
Also, how old are the plugs? Are they a few years old? Might be time to replace them just in case. NGK works best in these bikes.
These are some of the easiest things to start with. And might give us the direction to go.
The ride IS the adventure. The destination is just to get gas!