Sorry for overlooking your questions earlier. When I first had the problem, I followed some advice on this site and checked the stator and R/R. Both looked to be shot, and the connector was black and burnt, so replaced both as well as the battery. But I assumed that they wouldn't be causing my short circuit, although bad voltage out of them probably contributed.
I was also burning out headlights before the bike died, so while it has been dead I also replaced headlight wiring with Eastern Beaver H4 assembly, headlights work when key turned on. The headlight issue was probably connected to the bad stator and R/R, and the Eastern Beaver assembly seems like a quality bit of wiring.
Other than that I have not done any mods whatsoever, and the bike was very stock when I bought it in early 2018.
With my crappy Ohmeter set at 200, I am getting no reading at all. But my neighbour is an electrician and he'll be home soon, so I'll borrow his Ohmeter and get back to you asap.