The attenuation setting on the probes was x1.
The only marking on the crystal is ECSL200E and I could not find any datasheets on it.
I have the ECM coming back for final sealing so I will try the 5-10pF capacitor in series with the probe. The MCU is owrkiing as the machine fired up and controlled the engine as it should. My problem is fixed but still curious on crystals and MCUs and how they interact and diagnostics. You guys have provided much food for thought.

You should always use the oscilloscope probe set to x10.

 

That’s not going to change much when there is already 10 Meg on a 10X probe.

I wasn't assuming the nature of his probe, I didn't realize the poster had told us what quality his probe was.