During the quest "Restoring Order," there are several opportunities to talk face-to-face with The Mechanist and resolve the robot problems peacefully. This includes after defeating several waves of robots in the final room, as well as collecting holotapes around the facility, and taking an elevator directly to the control room. In a normal game, you should be able to talk to The Mechanist. In my game, she is automatically aggressive and attacks me on sight. I've seen this issue reported before, but the cause is nearly always a mod related to enemy targeting, HUDs, or AOE mods on weapons or armor. The only mod I have that comes close to any of these is HUDFramework, but I tried removing this mod and returning to a point before entering The Mechanist's Lair. It didn't work. I also tried accessing The Mechanist's FormID through xEdit, but I found no mods modifying her character. I also tried talking to her without any armor and forcing my companions (Sentinel Power Armor and Dogmeat) to wait outside, leaving only Ada, who has no torso mods attached.
Issue Data
Issue #30069: The Mechanist is automatiacally agressive after she agrees to talk or I take the elevator to the CR