Ijiranaide, Nagatoro-san revolves around the daily life of Naoto Hachiouji, a shy and introverted upperclassman who gets caught in the playful torment of Hayase Nagatoro, a younger student.
Nagatoro's initial teasing is relentless and often embarrassing for Naoto, leading him to call her "Nagatoro-san".
Despite her constant taunts, a unique and evolving relationship blossoms between them, gradually transforming his mundane existence into something more exciting and engaging.
The anime follows their interactions and the subtle development of their connection as Naoto slowly adapts to Nagatoro's spirited personality.