Ok, you cant use the console command mod to add/remove the automated hull mod
But you can have an officer in a remnant ship and a ai core in a to a non automated ship.
First aquire the ship you want, then save the game.
Then go into the appropriate ship data and find the built in hull mods
If you want an officer pilot a remnant, remove the hullmod "automated" (you may need to replace the hullmod with something else if there isnt any other mod, i suggest "advancedcore)"
If you want an ai core pilot, say, an onslaught, add hullmod "automated"
Reload your game. You now can do what you want, this can be used to have an remnant flagship.
If you want to then put ai cores in the same type of ship, simply reverse what youve done
[attachment deleted by admin]