You had posted " My left hand column says C0 D R S T X, which I interpret as calibration indicators." and I merely pointed out where this was documented. It was not intended to solve your other problems.
I would have no way of knowing what condition your cables, standards or VNA are in, or what version of firmware you have installed. The fact you claim it all worked and then broke when you ran a cal, leads me to believe something was damaged. Of course, now that it's been reflashed you have added more variables.
I pretty much have kept the same set of cables attached to it and will torque them. So far, it's held up fine. I basically run it headless so I won't be much help as I don't pay much attention to the Nano's screen. That and as I mentioned, running I would guess an uncommon version of firmware.
If you have SMA adapters, you could start to test the cables and standards with a meter. If it's the VNA, I wouldn't waste too much time on it. At $50, it's disposable.