"Why the Hell Are You Here, Teacher!?" follows a straightforward, episodic structure where each arc concludes with the respective student and teacher couple acknowledging their feelings and officially starting a relationship. The primary "twist" across all storylines is the revelation of a past connection or a shared moment of vulnerability that solidifies their bond.
For the first couple, Ichiro Sato and Kana Kojima, it is revealed that a young Ichiro once befriended a shy, younger Kana, a memory that deeply impacted her and subconsciously drew her to him. Their relationship culminates with them officially becoming a couple after he graduates. The second couple, Rin Suzuki and Mayu Matsukaze, bond over their shared awkwardness and Mayu's constant need for rescue. The manga reveals they eventually get married. Each subsequent couple introduced in the anime—Takashi Takahashi and Hikari Hazakura, and Ko Tanaka and Chizuru Tachibana—follows a similar pattern. They are thrown into a series of escalating, risqué predicaments that break down the student-teacher barrier, leading to a confession and the start of a romantic relationship by the end of their respective arcs. The series finale brings all four couples together, confirming their status and highlighting the shared absurdity of their romantic journeys. The OVA episode (Episode 13) further explores their relationships in an even more explicit and comedic context, solidifying their bonds.