Beginning to despair of this thread. I get the impression Minto wants to strip the engine down, no matter what. Well, if that's what he wants to do, fine, go ahead. But it won't diagnose anything and what if, after a hone and new pistons, the bike does the same again?
As I said a while ago, if it ain't knocking or smoking then the engine, whilst pistons / bores may indeed be not pristine, is never the less perfectly OK for now. If the problem was too tight a bore, it would have seized 'properly' ie, pistons would be damaged to the extent rings are trapped with consequential knocking and smoke. It didn't, it tightened up gradually as a result of overheat. So the problem is either timing or fuel. As for checking fuel flow, how difficult is that? Take the fuel pipe off the carb and turn the tap on. Does it drip, dribble or flow? If the latter, that's fine. Now - the fuel filler air vent. Does it have a clear 1/16" vent hole or not? Easy enough to determine. After that, carry out a plug chop. Job done.