"Cannot comply" from CE

[svenks]

High T\C wont refresh them - needs to be under 256 IIRC

Wrong. You need to be under TC=64 for the fatigue/recover thing to work.
So if your crew is too tired to move the ship, get them into the bunks and set TC to 32. And don't forget the officers - they also need rest. In fact, I'l bet that your CE is way to tired to even order: "All ahead slow"!

In the future, you need to swap crew and officers around BEFORE they get to tired - or- do a search for "fatigue" and "vitamins". That will show you how to mod the game, so your crew won't get tired, or at least, not so fast!

HTH
Sven