Kyubey introduces the concept of magical girls before a countdown animation plays (based off the Eternal movie). When it finishes, the game cuts to Madoka Kaname, Mami Tomoe, and Homura Akemi fighting the witch Patricia, as seen in Episode 10 of the anime. Homura complains she can't fight on power lines, and is saved from a familiar by Madoka. Mami says the witch is likely to target Homura because she can't move. Patricia then attacks Homura as Mami expected and both Madoka and Mami defend her. Mami creates a ribbon bridge so Homura can stop time and throw bombs at the witch.
When Homura stops time, the screen brightens and she sees a strange girl. The screen darkens again when the girl disappears. Homura tries to understand what happened, but realizes she has to throw the bombs and does so. Time restarts and the witch is defeated. After the barrier disperses, Homura wonders if she just imagined the girl. Madoka and Mami praise Homura's efforts. Suddenly the screen brightens again and Madoka and Mami disappear. The girl reappears and speaks to Homura, telling her: "If you want to change fate, then come to Kamihama City, because magical girls can be saved in this city". Homura asks the girl what she's talking about, but the girl disappears. Homura wonders if she can change Madoka's fate if she goes to Kamihama.
The world returns to normal and Madoka and Mami reappear. Madoka says Homura was spacing out for awhile. Homura claims she was just tired. Mami invites the girls for tea and cake. Homura narrates that this was the first time this happened - even though everything else had been the same as before, the girl appeared. Homura wonders who the girl was, and wonders if she can change the fate of magical girls by going to Kamihama. A curtain appears and rises up to reveal part of a gear-like symbol. There are Runes that read "Bitte Finden Sie Mich" (BITTE FINDEN SIE MICH, German for "Please Find Me") and 2017 (2017). An unknown creature is seen before the title is shown.