Update:
I've ran the bike another hundred miles with no problems.
Today I tested the coils with my digital multimeter. The readings seemed to be in factory specs, what are your thoughts?
Here's the Primary circuit reading. Factory spec is 6 ohms. The photo is of the left side. It bounced around between 4-6 ohms. The right went between 6-7 ohms.

Here is the Secondary circuit reading. Factory spec is 15 k-ohms. I didn't know how to get my multimeter to read in k-ohms. But the smaller scale on the bottom seemed to indicate at the 14 scale?

The kickstand switch had no resistance, so it seems to be fine.