So I finally got my 2006 999 apart and found that the main rod bearing on the vertical cylinder is shot. There was a lot of play on the piston and all the carbon on the outer ring of the piston is worn off. Looks like the mechanical noise I was hearing was actually the piston hitting the head. Doesn’t seem like the valves got beat up. Has anyone ever heard of anything like this happening? The bike only has 2000 miles on it! I have heard that some of the 999’s had oil pumps coming from the factory out of spec. Any thoughts????