Windmills and factions

Hi everyone. I messed up, I think. I've only had one choice when assigning a resource - the water tower. I chose the survivors and have been solely working for them. Only one cleared windmill produced a scene with people moving in and setting up shops etc. Later, I destroyed the big windmill, and a little later, a nearby smaller one, and all of a sudden it's a Peacekeeper stronghold, and a message pops up saying there are 4 or 5 additional Peacemaker sites nearby.

Is there any way to reverse this? I can't rule back a save. And is there any way to ensure that completing a windmill results in a settlement forming?