How many times can rod and main bolts be torqued?

Yes, if you replace the rod bolt, it's best to have the crank bore refinished as replacing the bolts can make the cap fit differently to the rod. any mis-match can cause the drag on the crank up to locking it up completely.

Crank bore refinished? Wouldn't I have already had that issue when they were re-sized already? Because everything got pretty good.