Same here!
When survey ships comes across pirate ships- the performance on auto resolve4 combat is veryyyy slow- all game hangs for a bit. If you select manual resolve- there is a slight hick-up before the animation kicks in.
The sad part in all of this (I did play on insane map), is that at some random point it just wont let you move on(overflow?...), the end basically. Also turn gryed out and save/load locked out. Hit exit- reload and hit exit- repeat.
As mentioned above survey ships dont seem to be smart- they stack up sometimes, they sometimes all go for the same anomaly and their priorities are odd.