You've got a similar problem to what I had, in the propulsion area, but there is a critical difference.
AFAI can tell, you've only got 2 EPM for dreadnaughts.
If you adjusted your mod so that the EnginesPerMove was proportional to mass, then you could use my AI patcher to alter the AIs and put more engines on larger ships.
It seems to me that the only adjustments to the AI's engine usage that you can do is:
-Actual number of engines
-% of space devoted to engines
So, unless your mod works along either of those lines, you'll have AI engine trouble.
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