"Biology 101": On his first day of school, Jeff gets kicked out of the study group's latest class by angering the teacher, Professor Marshall Kane. While trying to get back in class he gets sprayed by monkey gas which temporarily makes him unstable. Feeling abandoned by the study group he confronts them in Group Study Room F and attempts to destroy the study table with an ax. Pierce later takes the blame for his behavior and Jeff is forgiven by the group. He also makes amends to Professor Kane and is allowed back into class.
"Geography of Global Conflict": Jeff encourages Annie to face off against her nemesis Annie Kim.
"Remedial Chaos Theory": While at Troy and Abed's housewarming party for their new apartment, Jeff proposes the roll of a Yahtzee die to determine who should go downstairs to get the pizzas from the delivery guy which creates six different scenarios.
"Horror Fiction in Seven Spooky Steps": Jeff and Britta investigate who may be the most psychologically unstable member of the study group .
"Studies in Modern Movement": After skipping out on helping Annie move into Troy and Abed's apartment, Jeff is blackmailed by Craig Pelton to spend the day with hi at the mall.
"Documentary Filmmaking: Redux": Jeff is cast to play Dean Pelton in the new commercial for Greendale Community College.
"Foosball and Nocturnal Vigilantism": Jeff and Shirley team up to take down German exchange students hogging the Foosball table and discover they have a shared past. She bullied him when they were kids and beat him in a game of Foosball. She further humiliated him by causing him to pee his pants after jabbing him with a Foosball shaft. He forgives her after realizing she truly regrets what she did and has since changed for the better.
"Regional Holiday Music': Jeff is convinced by Annie to participate in the Greendale Glee Club's Christmas pageant.
"Contemporary Impressionists": Jeff sees a new therapist who over medicates him with anti-anxiety pills. This leads to an ego field rampage at a Bar Mitzvah which sees him being shot by Ben Chang with a tranquilizer gun.
"Urban Matrimony and the Sandwich Arts": Jeff struggles to write a toast for Shirley and Andre's upcoming nuptials. At the rehearsal dinner he and Britta get drunk and try to convince the pastor to marry them.
"Digital Exploration of Interior Design": Jeff and Annie discover a poison pen letter in his locker from someone named "Kim".
"Pillows and Blankets": Jeff takes advantage of the feud between Troy's Blanket Fort and Abed's Pillow Fort to avoid taking classes.
"Origins of Vampire Mythology": Jeff and Shirley go to a carnival being held on the campus grounds to investigate a former boyfriend of Britta's named Blade.
"Basic Lupine Urology": Jeff and Annie prosecute Todd for the sabotage of the study group's yam Biology project.
"Course Listing Unavailable": Jeff is angered that he and the study group are being forced to retake Biology and helps to incite a riot at Star-Burns memorial service.
"Curriculum Unavailable": Jeff and the study group attend a group therapy session with Abed which leads to a startling revelation.
"First Chang Dynasty" Jeff and the study group plan an elaborate caper to rescue a kidnapped Dean Pelton and put an end to Chang's rule over Greendale.
"Introduction to Finality": Jeff is given an ultimatum by Alan and must choose between loyalty to his friends or his future career as a lawyer at his old law firm.
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