Takanashi Souta, lover of all things small, is recruited by his tiny sempai Taneshima Popura to work at the family style restaurant Wagnaria. There he meets his new co-workers and begins to learn about their many quirks.

Takanashi is visited at work by one his 4 sisters. Hiroomi the assistant cook attempts to blackmail the staff of Wagnaria so that he won't have to work. At the same time it becomes apparent that Satou the head cook has a thing for Yachiyo the head waitress.

Yamada tells a scary ghost story at the end of work and Mahiru is to scared to go home where she would be by herself. Takanashi invites her over to spend the night at his house, Yamada follows them there, claiming to be too scared even though she was the one who told the story in the first place.

Takanashi and Mahiru go on their "date". The staff of the restaurant fearing for Takanashi safety concoct an elaborate plan to have him cross dress so that Mahiru would think of him as a girl and not hit him. As the date comes to a close Takanashi comes to realize his true feelings for Mahiru and Mahiru receives the compliment of her life.

Popura becomes upset with Sota constantly calling her small. Later, Sota becomes devastated when Kyoko kills a bug, inadvertently insulting Popura and Inami in the process.