人工虚無界の門が完全に開き、多くの人間が悪魔を見るようになったことで物質界は混乱に包まれていた。その中で、雪男は正十字騎士團から離反しイルミナティへ向かう。自分たちの出生の秘密を知る必要があると決意した燐は、メフィストの手引きで40年前の過去へと旅立つ。廃工場で暮らす孤児のユリと、十三號セクションの実験体である獅郎。2人の出会いを燐は目にする。
The artificial Gehenna Gate has completely opened, throwing the material world of Assiah into utter chaos as many humans have now begun to see demons. Amid everything, Yukio leaves the Knights of the True Cross and heads for the Illuminati. Rin decides that he must learn the secret of their birth. He embarks on a journey 40 years into the past with Mephisto's guidance. Rin witnesses the fated meeting between two individuals – an orphan who lives in an abandoned factory named Yuri, and a test subject from Section 13 named Shiro.
Rin volta para o passado e começa a acompanhar o passado de sua mãe, Yuri Egin. Em meio a isso, ele descobre como ela conheceu seu pai adotivo, Shiro.
Suite au départ de Yukio chez Illuminati, torturé par son passé, Rin se rapproche de Méphisto pour comprendre ses origines. Le voilà propulsé dans le passé où il observe Yuri, une jeune enfant sans-abri.
Rin atravesa la puerta que lo lleva donde quiere ir, al pasado. Allí verá a su madre, Yuri, de muy pequeña, viviendo en la pobreza.
