Turk has to confront a young patient of his, when he accidentally cuts a nerve and the boy (who happens to be a concert pianist) loses use of one of his hands.

Meanwhile, one of Elliot's patients unintentionally teaches her a lesson about her relationship with J.D.

Dr. Cox is having issues with Jordan, since Ted revealed that they are still technically married due to some filing problems.

J.D. has problems of his own as he can't shake off the tag of Co-Chief Resident the Janitor assigned to him, while Elliot keeps the Chief Resident tag.

Elsewhere, Turk begins to doubt his abilities after letting a patient die and isn't helped, when he finds out J.D. has no confidence in him either.

Dr. Cox and Molly spar about her involvement in his patients.

Elliot becomes unsure, if she wants Molly as her mentor, when she finds out that Molly doesn't have a perfect home life.

J.D. is tested in leadership skills when Dr. Cox yells at him in front of his interns.

Carla and Turk try to come to an agreement when Turk continuously wakes Carla up every night.

Elliot starts showing J.D. up as the calmer, more competent doctor. A date with the Janitor leads to an a capella sing-off between his "group" and Ted's band.

Turk starts taking his diabetes more serious, when he realizes the dire consequences of the disease.

J.D. tries to impress Kylie by paying a hobo in the hospital to fake a heart attack, when everything becomes boring due to a quarantine that he caused.

Turk learns, that Carla dated Cox and gets mad at her for not telling him.

The Janitor makes a bet with Dr. Kelso, who is starving, that will make him pay $700, unless the Janitor is able to get a "face cake," in order to satisfy him, from Laverne.

Also, Danni Sullivan returns to annoy everyone, causing a constant fight between Ted and Doug.

J.D. is thrown out of the apartment.

Turk and Carla continue to struggle to keep the romance alive.

Dr. Cox has reason to believe that the son of an old buddy is autistic.

Elliot is torn between moving too quickly and ruining her new relationship with Jake.

Dr. Cox teaches Turk about having a healthy ego and Dr. Kelso and the Janitor fight over who gets to use the motorized cart.

With their residencies over, there are big changes at Sacred Heart. J.D. moves out to live on his own, while Turk and Carla consider a family change, creating another rift in their long friendship.

Jordan is hired to handle some paperwork for Kelso, which annoys Cox.

Elliot has a job interview at a different hospital thanks to her boyfriend Jake.

J.D. meets the klutzy Julie, and when he becomes smitten, Elliot attempts to help out with romance advice. Meanwhile, Carla tries to find Dr. Cox's soft side, when he refuses to kiss his son.

Turk and the Janitor put together an air band to win a contest, but Kelso gives them a tremendous obstacle.

J.D. is sick of perfect intern Keith and he's not the only one. Elliot's relationship with Keith is revealed, so the other interns think that he is getting special attention. In the meantime Dr. Cox boasts about being named "The Best Doctor in the City" by a local magazine, thus Dr. Kelso assigns him to the most difficult patient in the hospital to deflate his ego. Also, Turk and Carla continue to struggle in their quest for conception.

J.D.'s brother Dan returns for a surprise visit and Elliot learns that J.D. has been telling Dan that she still likes him. A patient with weight-related problems needs an MRI, but he's too big for the machine. Carla and Turk freak out when they begin to discuss baby names. Meanwhile, Dr. Kelso assigns Dr. Cox to assist Ted with malpractice claim paperwork after Dr. Cox insults Dr. Kelso's son.

Turk and Carla turn J.D.'s old bedroom into a nursery for the baby. The Janitor seizes an opportunity to shove J.D. out of the picture for a day. Elsewhere, Elliot uses her mother to learn information about Keith's peers and Turk & Dr. Cox accuse each other of not being hip.

J.D. feels that the same things happen over and over again at the hospital. Dr. Cox returns to work, but Elliot believes that he has lost his usual confidence. Elliot calls Dr. Cox on his behavior. Carla gets fed up with Turk, because he still can do a lot of stuff, but she can't since she is now pregnant.

In the wake of Laverne's funeral, the Sacred Heart Staff decide to implement lessons from her life to their actions. Carla is upset that everyone seems to act as if nothing has changed. Dr. Cox tries to take twenty minutes for himself every day, but has great difficulty doing that. Meanwhile, the Janitor helps J.D. and Turk treat a deaf patient. And Elliot learns that Keith wants more from their relationship.

J.D. is planning on leaving Sacred Heart but before he goes there are a few things that he wants to do including; getting a hug from Dr. Cox, and learning the Janitor's real name. Elliot is ready for the next step in her and J.D.'s relationship and she begins moving her furniture into J.D.'s apartment.