Finally managed to get some images downloaded from my thermal camera that I took before stripping the computer down. It picked a good time to require an update...
The is the rear of the computer, the inlet/feed is the quick disconnect at the bottom and the outlet is the quick disconnect at the top. The outlet is much warmer than the feed so at least I didn't mix them up - that would have been hilarious.
The image below is the reservoir and pump showing the warm water going in and out of the pump to the top of the MoRa3 radiator. The outlet of the radiator is the shiny thing just at the bottom of the pump. The water is much cooler so the radiator is doing it's job.
Below is the Heatkiller block for the 4090 - the top tube is the inlet to the block and the bottom tube is the outlet. There is definitely some heat absorption by the coolant.
This leads me to believe there was a flow restriction which meant the coolant hung around the components for longer than it should leading to a high coolant temperature. With the MoRa3 radiator being so damn efficient causing the delta of the coolant to be so large, it may have caused the thermal paste "pump out" on the GPU, each temperature cycle making it worse. Sounds plausible?