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J.D. prepares to start living life on his own, straining his friendship with Turk; Elliot pursues a new career opportunity at a nearby hospital, upsetting Carla.
Turk saves a man's life at the taco stand, but Cox taks the credit; Elliot enlists J.D.'s help to prevent her dates with Jake from becoming too intimate; Kelso terrorizes the hospital from his motorized wheelchair.
Jake (Josh Randall) brings in his dying neighbor and helps convince her it's time to die, but gets sued by her brother; Elliot goes to Cox and Carla for romantic advice with Jake; Turk has problems in couples therapy.
Turk learns about the kiss between J.D. and Carla and gives them the silent treatment; Cox needs Elliot's help with a a teenage epileptic patient.
J.D. and Carla get drunk while he tries to get her to reconcile things with Turk and they accidentally kiss.
J.D. and Elliot try to cheer up Turk and Carla, who are having marital problems; Cox challenges Kelso to lead by example and take on some patients.
Molly returns to Sacred Heart and J.D. blows off Kylie to go out with her; Carla finds out Turk is still in contact with his ex-girlfriend; The Janitor bets Cox his van for Cox's porsche he can get a date with Elliot.
J.D. has problems wit Kylie; Turk and Carla asks J.D. to move out to give them space and they realize how mucht ehy need him; Cox believes his child has autism.
Cox yells at Kelso for firing another staff member due to budget cuts; J.D. fantasizes what the hospital would be like as a sitcom.
During a date with Kylie, J.D. and she wind up at the hospital where he mentions SARS and the whole place goes in lockdown, trapping them, the staff, and a visiting Danni (Tara Reid) inside.
J.D. falls for a bartender Kylie (Chrystee Pharris), and can't reveal her new boyfriend has an STD; Cox awaits the LAkers / Heat game but must watch it after his shift and the Janitor messes with him.
A man in a bar fight (Colin Farrell) teaches J.D. and Turk about living life to the fullest; Elliot and Carla find their friendship strained; Cox gets a vasectomy behind Jordan's back.
When Elliot proves to be the better doctor, J.D. struggles to compete; Turk tries to make money from his diabetes until he has to amputate a diabetes patient's foot.
J.D. addresses a group of pre-med students about being a doctor and he and the staff reminisce about their best moments; Elliot faces her fear of children when left in charge of a ten year old.
J.D. befriends the son (Matthew Perry) of a noted singer who refuses to donate a kidney to his dying father; Carla and Jordan teach Elliot to use her sexuality to her advantage.
J.D. tries to break up with Neena, as she represents Mr. Corman in his lawsuit against Turk; Elliot pretends to be a male doctor to avoid issues with a sexist patient who's a member of the board.
J.D. and Cox have to deal with a manipulative malpractice lawyer, Neena Broderick (Julianna Margulies); Turk tries to avoid a hypochondriac patient Harvery (Richard Kind); Elliot steers Doug on a new path.
J.D. is about to sleep with Molly, but needs Elliot's permission first; Cox has to fulfill his community service hours by working an ambulance with non-stop talker Denise (Molly Shannon).
J.D. tries to get over the romance between Elliot and his brother Dan (Tom Cavanagh), who is still staying with him after their father's death.
Dan (Tom Cavanagh) comes to visit J.D. to tell him their father died; Cox has problems helping J.D. cope; Turk has symptoms of diabetes but refuses to go to a doctor and Molly uses psychology to convince him.
In an episode narrated by Elliot she begins to doubt Molly being the best mentor when she finds out her boyfriend is a convicted felon.
J.D. has Dr. Cox give the new residents a pep talk, Elliot argues with Molly over whether to give an ex-drug addict patient a new heat valve; Carla tries to clean Rowdy and loses him.
J.D. gets annoyed at the Janitor for spreading his title as "Chi-chief" and Elliot the Chief; Dr. Cox and Jordan fight when they find out their previous divorce was never official.
J.D. and Elliot are named the co-chief residents by Dr. Cox; Turk and Dr. Cox have to remove a light bulb from a patient's rectum and call upon the Janitor for help.
Turk and Carla begin to have issues as she attempts to change her new husband; Molly (Heather Graham), a new psychiatrist becomes friends with Elliot; Carla lets Turk pick out a new car but instead he buys three scooters.