if you're going to bother going all the way through it, i'd replace all gaskets and seals, primary and cam chains, cam tensioner parts, piston rigns, and have the head serviced. most crank and rod bearings i've measured- even on high mileage bikes- were within wear limits, though they they do tend to wear unevenly. it doesn't hurt to replace them and rod bolts while you're at it, but i'd say bare minimum will suffice most of the time.
there's a thread covering most of this... search "rebuild for dummies."