Ok, it appears that I have fixed it, although can't swear I know exactly how I did it. I confirmed that I had power completely through the 2-3 circuit to the coil, but still no spark.
I went to O'Reilly and got a points file and dressed the points. Then I removed the bolt and all the washers and gave everything a good clean and made sure everything went back in the correct order (which they already were when I took them apart). Then I carefully reassembled and made sure all my gaps and timing were still correct.
I put the tank back on and started it. I could tell from how it rev'd I had all 4 this time, but to be sure I grabbed some water from my apartment, started it again and let it run for a bit then poured water on all 4 pipes and got a nice sizzle and steam.
I did a short ride around the block and it ran ok, but not great. However, the gas is old and it hasn't run consistently on all 4 for 11 months, so it likely needs gas and a good ride.
Before I do that it needs the headlight reinstalled, which I am working on now. I am also replacing the halogen sealed beam with an LED I ordered this week. It was much easier to adapt to the stock housing than the one in my 550. It is overall thinner than the bulb that was there, so I should gain a little space in the shell.