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Dopo aver scoperto di essere un'arma, Tsugumi Harudori si trasferisce nella scuola situata a Death City per armi e maestri d'armi fondata da Shinigami, la Shibusen, in modo da poter imparare al meglio come essere un'arma. Mentre sale con grande fatica la lunga scalinata che precede l'istituto, Tsugumi è aiutata da una delle studentesse della Shibusen, Maka Albarn, che la incoraggia a raggiungere la cima, dove è possibile ammirare il panorama mozzafiato della città come ricompensa per gli sforzi compiuti. Tsugumi arriva presto all'aula dove vengono accolti le nuove matricole. Qui fa amicizia con la smemorata maestra d'armi Meme Tatane. Ricevuto il compito dal professor Sid di trovarsi il proprio partner, le matricole assistono alla dimostrazione della sintonia tra arma e maestro d'armi, eseguita da Maka e dalla sua arma partner , Soul Eater Evans. Dopo l'accoglienza, Tsugumi decide di seguire l'esempio di Maka e cerca di aiutare Meme che viene importunata da due delinquenti, intenzionati a farla diventare la loro partner. Notata la situazione, un'altra maestra d'armi di nome Anya Hepburn decide di affrontare i due delinquenti e chiede a Tsugumi di diventare un'arma, ma questi non è in grado di trasformarsi completamente e quando vuole. Con l'incoraggiamento del professor Sid, Tsugumi riesce a concentrarsi e a trasformarsi completamente in un'arma, un'alabarda. Anya impugna Tsugumi in forma di arma e mette in fuga i due delinquenti. Dopo il combattimento, sia Meme che Anya esprimono la propria intenzione di rendere Tsugumi la propria partner.

Fellow student Eternal Feather shows Tsugumi, Meme and Anya around the girls' dorm, and they meet some of the residents there. By the next morning, all three had lost their allowance, and thus had to take part-time jobs at a café named "Deathbucks."

Eternal Feather reveals more about Kim's history, as well as the origin of her name. A new threat, known as "Traitor," menaces the students of DWMA, and Sid sends Clay and Akane to scare them off. Anya feels left out when she misses her turn with Tsugumi.

After a nightmare, Tsugumi wonders why the meisters choose to come to DWMA. She spends some time talking to Akane, who asks her to be his girlfriend, only to say he was joking. The class takes their physical fitness exams, where both Meme and Anya excel.

After dreaming about Kim, Jacqueline is bothered by feelings of attraction for her. Kim leads the girls in a pool-cleaning job, and after she takes most of the pay, they help Jacqueline try to win Kim over, while learning about her mysterious background.

Tsugumi and the others get a bad impression from the Thompson sisters, Liz and Patty, who are working at Deathbucks whilst on probation, having spent most of their childhood living on the streets of Brooklyn. When they run into the sisters later that day, Anya prepares to stand against them with Tsugumi, but is outmatched by their ability to both transform into pistols.

Akane and Clay report to Sid that they suspect the culprit behind the Traitor incidents to be a witch named Shaula Gorgon. Meanwhile, Tsugumi and the others get together for a study session at Deathbucks, helping out when the place gets busier, even if only for a brief moment.

Whilst Akane and Clay interview Maka and Soul about the incident, Tsugumi and the others are relieved to find Eternal Feather has survived thanks to the efforts of Dr. Franken Stein, though are none too pleased with his pranks. As Eternal Feather steadily recovers from her injuries, Stein reports his findings to Sid.

A series of tales that take place whilst the girls are growing pumpkins for Halloween. During the night, Tsugumi and Anya have to deal with Meme's unique sleepwalking, which proves to be a fearsome fighting style similar to drunken boxing, which Meme can only perform whilst asleep or unconscious. On another day, Meme wakes up with a bag full of cash, a sloth, and a missing eyebrow, with no recollection of what led her to this bizarre situation. As Meme's investigation continues to leave her with more questions.

Tsugumi becomes upset when she receives a letter from her mother informing her that her dog, Pochi, had gotten involved in an accident, and ends up lashing out at Meme for forgetting things so easily. That night, Tsugumi and Anya follow Meme during one of her sleepwalks, winding up at the hidden research room where they are discovered by Akane and Clay.

Whilst the rest of Death City celebrate Halloween with a Battle Festival amongst the EAT students, Kim and Jacqueline are tasked with watching over Tsugumi, who had been grounded for her actions. Meanwhile, as Akane and Clay escort Anya towards the airport, the city is suddenly overrun by NOT students turned into Traitors, which the EAT students have to fend off.

Having spread out Traitors across Death City, Shaula unleashes her magic, making the Traitors more powerful whilst also ordering some of them to kill themselves as she sees fit. Shaula then sends Meme to kill Tsugumi and Anya, with Anya attempting to subdue her to give Tsugumi the chance to administer the antidote.