Inside the Usagiyama Shopping District lies an eccentric but close-knit community of business owners. Tamako Kitashirakawa, a clumsy though adorable teenage girl, belongs to a family of mochi bakers who own a quaint shop called Tama-ya. One day, Tamako stumbles upon a talking bird that presents himself as royalty from a distant land. Dera Mochimazzi, as he calls himself, states that he’s seeking a bride for his country’s prince. Intent on his mission, Dera follows Tamako home and develops an addiction to mochi, becoming painfully overweight and subsequently unable to fly back to his homeland; thus, he takes up residence with Tamako's family and becomes the community’s beloved mascot. Meanwhile, Tamako's friend, Mochizou Ooji, continues to hide his true feelings for her. Their fathers are fierce mochi rivals, but will it be enough to drive a wedge between Tamako and Mochizou? And just what will happen to Dera's task of finding his prince’s destined bride?

On the first day of junior high school, Mato Kuroi happens to run into Yomi Takanashi, a shy, withdrawn girl whom she immediately takes an interest in. Mato tries her best to make conversation with Yomi, wanting to befriend her. At first, she is avoided, but the ice breaks when Yomi happens to notice a decorative blue bird attached to Mato's phone, which is from the book Li'l Birds At Play. Discovering they have a common interest, the two form a strong friendship. In an alternate universe, the young girls exist as parallel beings, Mato as Black★Rock Shooter, and Yomi as Dead Master. Somehow, what happens in one world seems to have an effect on the other, and unaware of this fact, the girls unknowingly become entangled by the threads of fate.

For young witches everywhere, the world-renowned witch Shiny Chariot reigns as the most revered and celebrated role model. But as the girls age, so do their opinions of her—now just the mention of Chariot would get a witch labeled a child. However, undeterred in her blind admiration for Chariot, ordinary girl Atsuko Kagari enrolls into Luna Nova Magical Academy, hoping to someday become just as mesmerizing as her idol. However, the witch academy isn't all the fun and games Atsuko thought it would be: boring lectures, strict teachers, and students who mock Chariot plague the campus. Coupled with her own ineptness in magic, she's seen as little more than a rebel student. But when a chance finally presents itself to prove herself to her peers and teachers, she takes it, and now it's up to her to stop a rampaging dragon before it flattens the entire academy.

From an early age, Haruka Sakura was made an outcast due to his unconventional appearance and lack of social skills. However, the rough treatment turned him into a proficient fighter, which is now the only thing he prides himself on. Starting at Furin High School, where it is rumored that strength is valued over academics, Sakura has only one goal—taking the top spot. Involved in a street brawl the day before his enrollment, Sakura happens to meet a group of his future schoolmates. Instead of the usual rejection, they fight alongside him, demonstrating that what the school actually cares about is protecting the town of Makochi from any harm—hence why the students call themselves Bofurin. Surprised by the support and appreciation of the townspeople, Sakura has a hard time accepting their goodwill. Though unfamiliar with kindness being shown to him, Sakura must learn to push past his discomfort when Bofurin is pitted against formidable enemies. After experiencing the feeling of acceptance, he finds himself fighting for the sake of others for the first time.