Thanks for the reminder on that Cal, checked the torques the next day and everything was good to go!
So since then I've gotten everything buttoned back up (after polishing a few parts on my bench grinder with a buffer wheel) and she's starting to look like a bike again.
I had a hard time getting her to fire up the first time, and discovered my 2/3 points weren't opening at all. Reset the gap and timing and she lept to life (albeit not very smoothly). So the next thing to check were the float levels via the clear tube method, and all 4 looked like this:
I had set the levels with a caliper to 22 mm before putting the carbs back on, but it seems another member was right in assuming that the new float needles require a different float height. I had checked all 4 today, but only got 2 adjusted before it started raining. I'll finish up the other 2 tomorrow. Also to make sure I wasn't getting any trash from my tank I attached some clear tube to the petcock and ran it to a clear jar, and luckily nothing bad came out so don't think anymore trash will be gumming up the carbs (for now....).
I'm also still having issues with getting the headlight to come on and having some oil weepage around the cam tensioner screw (i think). The headlight worked fine before I pulled the top end off but now it doesn't want to come on so i'll be checking all the connections tomorrow as well. I have an assortment of o-rings to try in place of the old one on the cam chain tensioner screw, hopefully that will solve the oil issue. I wasn't able to find anywhere around the head or base gasket that was leaking.