I'll try this one more time.
my other ideas didn't gell after I reread your original post.
Did you put all the correct bolts in? Along with the correct lock washers?
The flywheel bolts use star lock washers, If you put split ring washers on them the heads might stick up too high.
You might end up pulling it back apart and looking for signs of contact where there should not be any contact.
You did torque the flywheel bolts to the correct torque specs? I know that sounds like a crazy question but a guy can get in a hurry or distracted and forget a step.