The new chief of medicine turns out to be as callous as Dr. Kelso, J.D. gives up on his intern class after they let him down, and Eliot is too self-absorbed to realize that Keith is still hurt from their breakup.
J.D. and Elliot begin contemplating whether they're back together, or whether they even want to consider going down that road. Meanwhile, Dr. Cox's mistrust of surgeons reaches the tipping point for Turk.
Dr. Cox is up for the Chief of Medicine position, but he's not sure if he wants it. Meanwhile, J.D. confronts his intern about her callousness toward patients, and Eliot asks for Turk's help in her love life with J.D..
Eliot misses J.D. while he is away. Turk announces that he and Carla are having a second baby, but nobody seems to care. Dr. Cox begins to wonder if Carla's attitude toward her job and her patients has changed.
J.D. and Turk direct the intern comedy show, but are mortified to discover that the biggest joke of the night is at their expense. Meanwhile, Eliot tries to get Denise to hang out with the other interns.
Turk is inspired to perform an experimental procedure on a paralyzed teen by a story on SportsCenter, Jordan is mad that Perry is wearing a wedding band, and the janitor thinks his new relationship is in trouble.
JD and Eliot are disturbed when Kim and Sean begin dating, and JD's son appears to like Sean more than him. Meanwhile, Dr. Cox has reservations about promoting Turk to Chief of Surgery, and Kelso admits himself into the hospital.
J.D. is mad at Turk when he overrules him on a medical decision in his new role as chief surgeon. But did he do it just because J.D. is moving away to be close to his son and taking a new job at another hospital?