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Set in a family restaurant in Hokkaido, the northern prefecture of Japan, 16-year-old high school student Sōta Takanashi works part-time along with his strange co-workers: Popura Taneshima, a high school girl who—despite being a year older than Sōta—is easily mistaken for a elementary/middle schooler, and Kyoko Shirafuji, the 28-year-old store manager who does not bother to do any work at all.
Souta spends the day looking after the little girl who came before, leading Popura to start feeling a little left out. The next day, Aoi comes across Haruna, seeing her as a potential mother and bringing her to Wagnaria, where the other staff try to keep her put until Otoo returns, but she somehow manages to escape regardless.
Souta is given the task of reporting his family's activities to Otouru Minegishi, Kazue's ex-husband and an employee of his mother who has an annoyingly masochistic behavior. The next day, Souta has to deal with poor eyesight after his glasses break because of Aoi punching him with Daisy. while Hiroomi tries to encourage Jun to ask Kyouko out for a drink.
Realizing that he and Yachiyo both have the same day off, Jun finally finds the courage to ask her out for drinks. Meanwhile, Yamada devises multiple plans to get Sota to pet her again.
As Kyōko remains spaced out over the previous day's events, Popura tries to act more reliable to fill in for her, while Mitsuki tests Jun to see how compatible he is with Yachiyo. Meanwhile, Sōta is bewildered over suddenly finding Mahiru to be cute, outright denying Kirio's suggestion that he might be in love with her. While trying to compliment Mahiru on how much she's improved with her anthrophobia, Sōta inadvertently upsets her by suggesting she find someone else to fall in love with.
While Sōta remains stressed over the other day's events, Izumi, assuming he had broken up with Popura, tries to set Sōta and Mahiru up with each other, unaware of the actual circumstances between them.
As Sōta feels conflicted over his feelings towards Mahiru, Aoi, wanting Hiroomi to give her some attention, tries to obtain information on the blossoming relationships. Later, Popura gets a toothache and takes the day off, having a dream where she becomes a magical girl. Meanwhile, Kirio ends up discovering Aoi, who is revealed to be the sister he was searching for, and is met with resistance when he tries to take her back home.
Staying over at Sōta's house, Aoi explains her backstory about being constantly forced to study by her mother, inevitably pointing out the reason she ran away was because Kirio ate her natto. As the other staff members try to convince Aoi to return home over the next few days, Popura asks Kirio to bring over his mother, Kikuno, who is revealed to have trouble talking with others clearly to the point that her children need a manual to understand her.
With Aoi's situation resolved, Sōta continues to be in denial over his feelings for Mahiru. Meanwhile, having finally learned Yachiyo's birthday, Jun gives her all the presents that he hadn't had the courage to give her before. Later, Aoi gets herself a cellphone, which she attempts to use to communicate with Kikuno, while Popura becomes depressed when she believes she's gotten shorter.
As Popura becomes more aware of the relationships blooming around her, she and Aoi question Otoo about the restaurant's stance on romantic relationships. Later, Minegishi comes to the restaurant to tell Sōta something and gets punched by Mahiru, leading her to feel she hasn't gotten over her androphobia, but Sōta manages to calm her down.
Jun finally works up the courage to confess to Yachiyo, but it doesn't go well and Yachiyo goes into hiding. After managing to find her, Jun gives a direct confession which she finally reciprocates. Afterwards, Kyoko seems to want to stop Yachiyo making parfaits for her, saying she shouldn't be tied down to her, but Jun accepts that Kyoko is a key part of the girl he fell in love with.
Jun finally works up the courage to confess to Yachiyo, but it doesn't go well and Yachiyo goes into hiding. After managing to find her, Jun gives a direct confession which she finally reciprocates. Afterwards, Kyoko seems to want to stop Yachiyo making parfaits for her, saying she shouldn't be tied down to her, but Jun accepts that Kyoko is a key part of the girl he fell in love with.
Still dressed as Kotori, Sōta gets some surprisingly sound love advice from Kirio, who instantly sees through his disguise. Meanwhile, Sōta and Jun become curious about how Hiroomi hasn't been snooping into people's businesses lately, only to find he has simply been more secretive about it. Later, Yachiyo tells Popura that she plans to quit Wagnaria to expand her horizons, assigning her as the next chief.
Aoi, curious about Sōta's delayed reactions, is tasked by Yachiyo with taking a photo of Hiroomi for an album. Meanwhile, as Sōta and Mahiru go on their date, they are interrupted by Mahiru's father, who Mahiru hits when he starts insulting Sōta, managing to work things out with him. Later, Yachiyo announces her resignation to the rest of the staff, with Sōta encouraging Popura to do her best as the next chief before being mysteriously abducted.
