Try our new info resource - "Aladdin's Cave" (Main menu)Just added a separate link to Ash's Dropbox thread (shortcut)
Looks to me like a plugged machining hole from Honda and that rod is a snap on type screw extractor that is supposed to be turned with the double ended nut, better than the tapered easyouts as its hamered into a parallel hole so the flutes bite in but still only works 50% of the time
Those drilling marks where the filer sits are standard, we all have them to a greater or lesser degree on our engines. There are quite a few in various places all over the engine, so nothing to worry about.There is alway a bit of side play on the primary chain and as for the engine noise, I would start with giving the carbs a thorough strip and clean, fit new Viton O rings, bench sync and then vaccum sync. How many miles has that engine done?
"But what is this all about? Looks like someone has attacked the filter housing with a drill?"As already indicated above they are present in various places and would seem to be there to facilitate machine clearance for critical machining during manufacturing.