Geez= 10,000 miles and a runner, no wonder it doesn't want to come apart.
I figure the best way to make a call on the bores is to use a inside guage and see, but they are prolly fine.
If you wanted a built, balanced, bored out motor there are plenty of old cores available around here with problems to start out with that would make a good project. This one you might just want to clean some carbon off and button it back up and ride it. 10,000 is hardly broken in for the cared for ones, others it's pastured and shot full of holes.