Amu Hinamori is a student at Seiyo Elementary, where she has a reputation for being "cool and spicy"; however, her real personality is that of an extremely shy and easily intimidated girl. One night Amu makes a wish that she would have the courage to be reborn as her "would-be" self. The next morning Amu finds three brightly colored eggs—red, blue, and green—in her bed. Each egg eventually hatches into a Guardian Character: Ran, Miki, and Su. Guardian Characters are angel-like beings that aid a person into becoming their "would-be" selves and fulfill the person's dreams. The Guardian Characters accomplish this by giving encouragement and advice, but they can also temporarily change a person's personality and abilities. With the Guardian Characters, Amu's life becomes much more complex as she now struggles to deal with her new personalities and the Seiyo Elementary Guardians—a student council group where each member has their own Guardian Character—who recruits Amu to search for and seal the X eggs and X Characters, corrupted forms of people's dreams.

The Band of the Hawk and their enigmatic leader Griffith continue winning battle after battle as their prestige throughout the kingdom of Midland grows. But their latest task is one that has seen failure from everyone who has attempted it: the subjugation of the impenetrable fortress of Doldrey. But with members like Guts—the captain of the Hawks' raiders who can easily fell 100 men with his gigantic sword—such tasks prove to be trivial. However, in the aftermath of the battle, Guts decides to leave the Hawks in order to pursue his own dream and bids farewell to his companions, despite Griffith's attempts to make him stay. This single event causes Griffith to lose his composure, and leads him to make a decision that will alter his and the Hawks' fates forever. [Written by MAL Rewrite]

God has abandoned the world. As a result, life cannot end nor can new life be born, and the "dead" walk restlessly among the living. Granting one last miracle before turning away forever, God created "gravekeepers," mystical beings capable of putting the dead to rest through a proper burial. Ai, a cheerful but naïve young girl, serves as her village's gravekeeper in place of her late mother. One day, a man known as Hampnie Hambart, who is supposedly Ai's father, arrives and kills all the people in her village. Having lost her village and with no plans for the future, Ai decides to accompany the mysterious man on his journey. As she travels the land, the young gravekeeper strives to fulfill her duties, granting peace to the dead and assisting the living, while at the same time learning more about the world that God left in this tragic state. [Written by MAL Rewrite]

Under the belief that the omnipotent god Mitama will come to save him, Yukito Urabe participates in a ritual to become the new leader of his father's cult. But when the boy drowns during the ritual, he wishes to be reborn in a world without gods or religion. Reawakening in a completely different world devoid of spirituality. He meets a deviant girl named Aruaru, who introduces him to her village. However, his idyllic image of this world's society is short-lived when he witnesses a public group suicide and learns of the country's end-of-life system: at any moment, the government may order any citizen to die. Aruaru and her sister are forcibly taken for execution soon after, prompting Yukito to rush to their rescue—but to no avail. In a moment of desperation, Yukito recalls his father's teachings and utters a prayer for Mitama to save them. Seemingly answering his call, a little girl descends from the sky and annihilates everyone who harmed Yukito and his friends. To Yukito's surprise, the girl introduces herself as Mitama.