can add a whitelist feature?
Use with FortressRuins mod
But I don't want to attack these things
aliengenerator=Strange Alien Power Source.
purple-crystal-gen=Purple Power Crystal.
green-crystal-gen=Green Power Crystal.
Our side can use it, attack it and it will explode·············

is there a way to make it onto your "team" /force?

Due to the biter AI and the way forces work, I can reduce the chance of a squad of robot solders being sent out directly to attack those things, but if they encounter them along the way or get stuck on it while moving or otherwise go into shooting distance, if it's not on the player's "force" Then they will always shoot them.

Using the forces/teams mod with GUI maybe you can see the list of forces and set the ruins faction to an "Ally" of your force?