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As they go home that day, Tōru starts to worry that at the end of the next school year, Run will graduate. Run comes home and is surprised to find Tōru spring out of her bed. The girls go to a karaoke bar, where Tōru is nervous about singing in front of Run, but Run helps her out by singing a duet with her. Tōru tricks Yūko into coming with her and the others to a scary movie, which scares her so much that she tries to force it out of her memory. At the end of the day, Yūko still forgets to collect her form. Later, Tōru and Run end up having an argument, which lead their respective friends to become concerned for them the next day. Meanwhile, a new health teacher, Sachiyo Satō, becomes attracted towards Run due to her forehead, which naturally bothers Tōru. As summer vacation ends and school resumes, Tōru's homeroom teacher, Kimiko Kito, is unusually energetic. Kimiko becomes annoyed when Satō interrupts her class. Kimiko injures her hand during class and has to deal with it while Tōru brings Tansan to school with her to meet Yutaka and Miho. As Yutaka becomes increasingly clingy to Tōru, her friend Miho Noyama tries to keep her in check, though this admittedly makes Tōru feel lonely.

In her first year class, a classmate named Yutaka Imai becomes overly friendly towards Tōru, which bothers her a bit. After noticing the first years hanging around the pool, Run suggests a trip to the beach for summer vacation. A bonus novel written by Re:Zero − Starting Life in Another World author Tappei Nagatsuki, titled Another World, Another Episode (あなざーわーるど あなざーえぴそーど, Anazā Wārudo, Anazā Episōdo), was given to the filmgoers during the first week of the film's theatrical run. As Run notices that Tōru had anonymously bought her a drink, she finds her on the roof where they make up with each other. On a cold day, Run and Nagi discuss what could make sitting in the classroom warmer. After having a weird dream about Run, Tōru becomes more worried about her fears until she spots Run outside her apartment building, feeling happy that she hasn't changed. Yūko shows how bad she is at video games before having to deal with a cockroach in her house.

After having to deal with heavy rain, the girls spend the evening at Nagi's house to dry off. Tōru comes over to Run's house to try on her new school uniform. Tōru has trouble dealing with her erratic teachers while Yūko mistakes Yutaka's way of dusting out her neckerchief as a cry for help. On the other side was the Thundercloud Unit led by Yukai, hidden in a statue near a lake, resisting the enemy, while Omoi going in their rescue gets rid of various White Zetsu clones with a lightning bolt under the water they decide to come out and fight, side by side with Omoi they destroy all the enemies, A contacts Omoi and informs that he failed his one hour mission and is going to get punished for that. Later, the girls decide to get pancakes at a café where Miho happens to be working, facing trouble when Yutaka shows up out of the blue. Meanwhile, Yutaka continues to harass Tōru, with Miho explaining why they became such fans of her. As the students clean the school up, Miho gets to know Tōru, much to Yutaka's chagrin, while the other girls have some fun cleaning the pool.

At first, only half of the girls agree to do it, but the others eventually join. When Yūko forgets a form she needs to fill in at school, the gang decide to sneak into the school at night to retrieve it, as well as do some exploring. When Yūko misplaces her recorder, the resulting conversation leads to another misunderstanding between her and Tōru. Run ends up giving Tōru an undesirable haircut, but manages to fix it into something she appreciates. Tōru is worried about the prospect of being left alone after Run and the others eventually graduate. As Winter settles in, Tōru finds an abandoned kitten and decides to take care of it. While Run and Nagi take a bath, Tōru forces Yūko to sit through a scary movie before continuing to tease her during their bath time. Run brings in some cake into school for Tōru's birthday, some of which she spikes with wasabi. As Tōru's birthday approaches, Run remembers how Tōru helped her study for her high school entrance exams two years ago. Yūko and Nagi go swimsuit shopping, while Run gives Tōru her swimsuit from elementary school, due to Tōru's small stature.