In the manga Murdock is also controlled by Doctor's nanomachines, but after facing off Train and River, they face against Eve and Train, that make them come back to normal through a plan invented by both. In the anime He also tries to lend his power against the fight of the Apostle of the Stars, but unfortunately, they get the best of him, and thus he falls unconscious. He then leaves Lin to take care of them. Fortunately, he seems to be all right after the final battle with the Apostle of the Stars. Source: Wikipedia