I got the 2nd GPSDO from Mike's link. It was a little wonky with the stock firmware (more than normal), so I switched it to 1.0.14, and reset it a few times, and it's working now. The only mod I've made so far on unit 2 (besides fw) was to remove C9.
I have both GPSDOs plugged in to the Magnova to see how they compare, and how tight they are in phase with each other using the scope's internal ref. It was entertaining seeing how crazy out of phase they were when one was already warmed up (and triggered on) and the changes as the other one counts down and begins to lock in. I'll assume that makes sense, I'm tired.

Here's an idea/request for the next firmware version:
If you can have the firmware synchronize the saved baud rate at startup with the module, I would assume that should get rid of the issues we're having after being powered off for a while.
Thanks,
Josh