The best way to stop an anarchist is to allow his or her plan to backfire.
If the hero can't shut him or her down with brute force, if the villain's motivating world views veer a little too close to sound logic, then it's all about going along with the plan until it blows up in someone's face. Emotion overtook Zaheer's methodical planning; Sure, he jetted off like Neo in the Matrix in the final moments of “Enter the Void,' but when his one true love P'li kicked the bucket in an epic duel with Lin and Su, the Red Lotus leader lost his cool. It was only a matter of time. Zaheer didn't believe in the power of collective empowerment, where individuals choose to become one of many. What a thrill it was to see powers combine to tornado him in the butt.