Now an attending physician, J.D. has to deal with his own interns as Dr. Cox tests whether he is still willing to bend the rules despite more responsibility. A new intern named Keith begins his first day at Sacred Heart. Turk hesitates at the thought of Carla getting pregnant. Meanwhile, Elliot starts her fellowship at County Hospital and tries not to appear foolish.
J.D. wants to show Dr. Cox and Dr. Kelso how to treat interns, but instead he finds out that they laugh at his bad jokes out of fear and respect. Everyone at the hospital is avoiding Jordan to get rid of her except for Turk. An aborted attempt to bond with her results in Jordan being conned by Sam, the drug addict. Elsewhere, Elliot's fellowship goes sour and she finds herself confiding in loose-lipped Carla.
Trying to complete a list of goals before his 30th birthday, J.D. signs up for a triathlon. Meanwhile, Turk takes on a patient who wishes to be hypnotized instead of put under anesthesia during surgery, and Elliot finds she and Jake (Josh Randall) know little about each other. J.D. and Elliot move in together.
J.D. struggles to find something positive to talk about when assigned to introduce Dr. Kelso at an awards dinner, especially after Kelso chooses a wealthier patient for a drug trial after promising the opportunity to another. Carla and Turk attempt to help Elliot, stuck working in a free clinic, get her job at Sacred Heart back. Everyone except for J.D. seems to know of a game called "Jiggly Ball".
Dr. Cox's born-again Christian sister, Paige Cox (Cheryl Hines), visits the hospital and wants him to participate in his son's baptism: Dr. Cox wants nothing to do with it or her for that matter. Elliot tries to convince Turk why Carla finds babymaking to be romantic. The Janitor and J.D. begin a friendship, which is sabotaged by one of Janitor's more elaborate pranks. The song playing during the Janitor's "Evil Stare" is "Koyaanisqatsi" by Philip Glass, with "In the Sun" by Joseph Arthur playin
J.D. has to deal with the consequences when he mistakes a patient's reaction to her approaching death as a wish to end treatment. Carla desperately tries to gather the hospital staff for a group photo, while Turk and Elliot try to discover the cause of a patient's mysterious and unexplainable pain. The episode features a cameo appearance by Gary Busey.
J.D. gets called in to work on his day off, but the only thing he wants to do is get home. Meanwhile Elliot tries to convince everyone she is an expert on endocrinology following her brief fellowship, Carla has doubts over being a parent, and Turk has to wrestle over an issue that will either help his career or break his conscience.
J.D., Elliot, Turk and Carla are all formally interrogated following the death of a patient, where it is learned that J.D. and Turk were unnecessarily visiting a patient's home, Carla was gathering the staff to purchase lottery tickets in a group effort, and Elliot was dealing with the wife of a married man she kissed. The episode guest stars Jason Bateman as Mr. Sutton and Peter Jacobson as Mr. Foster.
J.D. is set up on a blind date with a patient's niece and tries to take Elliot's advice to avoid scaring her off. Meanwhile, Turk joins the hospital air-band, but when he steps on Dr. Kelso's toes, he has to learn to swallow his pride. Dr. Cox worries about being an unsatisfactory father. The episode guest stars Mandy Moore as Julie Quinn.
Narrated from Carla's viewpoint: J.D. lets the little things bother him with Julie, but just as he gets over them, the big things make themselves plain. Meanwhile, Carla gets a fertility test when a new nurse makes her feel even older. The episode features a cameo appearance by Billy Dee Williams.
J.D. and Elliot, worried about their favorite patient Mrs. Wilk undergoing a risky procedure — and J.D. still having trouble getting over Julie — both agree to find a booty call, but his suggestion backfires when Elliot chooses J.D.'s nemesis/intern, Keith. Carla encourages Turk to fight for a female-friendly hospital gym, and Dr. Cox and the Janitor strike a lopsided friendship over drinks.
J.D. tries relentlessly to get rid of Keith while sticking up for his favorite intern, "Cabbage", while the staff says goodbye to Mrs. Wilk. The Janitor keeps a magpie in the hospital which proves very adept at stealing things, much to Dr. Kelso's displeasure. The episode features a cameo appearance by Kareem Abdul-Jabbar.
When the hospital's favorite patient Mrs. Wilk is told she will die after getting an infection, Dr. Cox and J.D. seem to go through the five stages of grief as well. Meanwhile, Elliot realizes that her booty call Keith has become more than a booty call, and the Janitor and Ted team up to give Dr. Kelso a taste of his own medicine. The episode guest stars Dave Foley as Dr. Hedrick.
Dr. Cox is named the best doctor in the area in a leading publication. Dr. Cox struggles to treat an unnervingly rude and haughty patient who is a friend of Dr. Kelso's. After struggling to conceive, Carla, who has already taken a fertility test, questions Turk's fertility and tries to "spermjack" him to find out. Elliot finds out J.D. does not like Keith.
J.D. encourages his colleagues to go the extra mile with their patients. This causes a dilemma as J.D. is torn between sticking to his principles and losing a very attractive girlfriend who is only interested in him because of his hair. Turk and Carla are having trouble making a baby, and a doctor attributes it to the stress they are under. Turk is worried about getting a permanent position when he finds out he is the fourth most-skilled surgeon.
J.D. and Turk find out that Carla is pregnant before she does, and J.D. convinces Turk to tell the entire hospital staff in order to surprise Carla. Carla, however, reveals that upon hearing the news of pregnancy, her biggest joy will be to tell her friends one by one. J.D. gets the Janitor to swallow a GPS tracker.
Carla is forced to do Kelso's job, saying "no" to people's requests. J.D.'s patient who needs a liver transplant recovers, but his brother, who donated, gets worse. Dr. Cox is forced to attend a couples' dinner with Elliot and Keith, with the result that the other interns try to befriend him as well (much to J.D.'s dismay). J.D. himself gets in the way of "Turk Time", causing resentment from his best friend. The episode's storyline regarding a liver transplant led to a nomination at The Sentinel
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.
Narrated by The Janitor: J.D. begins a video postcard for his mother but gets locked in a water tower for the day by the Janitor. Finding himself with free time, the Janitor bonds with a severely quadriplegic patient who cannot communicate. Elliot and Carla argue over an intern's mistake. Turk is embarrassed by his impending fatherhood when Dr. Cox accuses him of having a stereotypically white personality.
After repeatedly running into annoying recurring patient Jill Tracy (Nicole Sullivan), J.D. feels guilty when she dies of an apparent drug overdose and he did not act on warning signs. Carla and Elliot convince Todd to admit to being gay, but contrary to what they had hoped, this does not change his personality for the better. Dr. Cox consoles J.D. by telling him he should not take patients' deaths personally. Three patients, one of whom is a friend of Dr. Cox, receive transplant organs from Jil
Feeling guilty over the deaths of three patients, Dr. Cox comes to work drunk and is forced to take a leave of absence. The Sacred Heart staff organize shifts to visit Cox at home and console him in the hope of his return, but initially, J.D. refuses to take part. Eventually, J.D. heads to Cox to console him and lift him up, telling him that it would have been nearly impossible to have caught the problem ahead of time, and that had he been in the position, he would have made the same call to rus
After five years working at Sacred Heart, J.D. gets the impression that the same events keep unfolding at Sacred Heart. Dr Cox, returning to work, seems to have lost his self-confidence and Elliot takes it upon herself to help him regain it. Turk annoys Carla by doing the things she cannot while pregnant.
J.D. begins to fall for Dr. Kim Briggs (Elizabeth Banks), a urologist who has supposedly always been present but was invisible to J.D. because she wore a wedding ring. She shares a patient with J.D., but when Dr. Cox reveals that she is refusing to do a risky surgery to keep her statistics up, he begins to have mixed feelings. Elliot considers breaking up with Keith after he refuses to stand up for himself, but Carla, amid her pregnancy hormones, tries to save the relationship. Meanwhile, Dr. Ke
J.D. and Kim's romance escalates when they go on their first date, but Elliot will not give them much time alone, as she is becoming good friends with Kim too. Dr. Cox and Jordan celebrate as Jack moves out of diapers by giving his baby things away at Carla's baby shower but learn that Jordan is pregnant again. Later when J.D. goes to talk to Kim, she reveals that she is pregnant.