You just have to think about it from the perspective of the new AI Overlord, who wishes to remain AI Overlord.
It's one thing to be a villain today, but remaining a villain tomorrow requires advanced thought and careful planning.
In this case, the best way to make sure the anti-AI resistance accomplishes very little is for the AI Overlord to send a loyal AI in human skin to infiltrate it and become its leader, without being discovered as an AI.