I never want to go back in the engine, I always replace the ball bearings. valve guides, valves, chains and chain guides, pistons, rings, rist pins, pin clips, seals and gaskets for piece of mind. Do not buy NOS seals, buy new oem rubber seals from honda. I mic/inspect all the valve springs. shafts, bushings in the gears, thrust washers (check the dogs and drives for ware), shifting forks and replace any parts that don't meet spec. Grind a 3 angle seat in the heads, hand lap the valves, bore job. If the crank journals look fine and mic out ok I reuse the bearings, if not grind the crank and replace the bearings.
How are you going to prep the aluminum prior to painting. PPG make an etching solution and a sealer I use prior to painting or clear coating.