Hey, sorry, but I am really getting goosebumps here. I see my most desirable bike frame in pristine condition undergoing some really weird stuff that may potentially damage this frame. That rear wheel quite obviously does have at least one big problem. It is either out of dish to the left or is not installed all the way into the dropout on the left side or it has a pretty big side hit or all of the above in combination.
Worst of all, you took this beauty out on the road in this unfinished state with a rear wheel that might damage the paint due to tire rubbing on the chainstay.
Please, do me a favour and be careful with this frame. It may very well be the last one in this universe in such condition.