活泼活力的高坂穗直子（小田惠海配音）、温文尔雅的荒田海由美（米森林子配音）、温柔勇敢的鸟南奈美（上田彩配音）、聪明的混血儿高濑爱理（南条爱娜配音）、自律的学生会长东东敏夫（南田雅司奈配音），骄傲迷人的年轻女士西野正树（Hori Izuko配音）、体育女孩Starry Sky Rin（饭田龙雄配音）、名不见经传的小泉华阳（Yurika Kubo配音）和太仓寄宿女孩Yazeniko（Takai Qingkong配音），这些勇敢的女孩组成了一个偶像团体，并发誓要做出正确的努力来保护学校不被废除。
作为实现愿望的代价，神奇的女孩们在无人知晓的情况下不断地战斗。然而，在Ilubo周围，他忘记了自己的愿望。当我成为一个神奇的女孩时，我许了什么愿望？“空虚突然出现在我的日常生活中。一些重要的东西已经失去了。
The story of the movie is somewhat based on the plot of the most recent game, "Sakura Wars 3," released back in March this year. While the game features Lieutenant Ohgami, the main character who takes off for Paris, narrates one side of the story, the movie unveils the secrets behind Hanagumi. Ohgami leaves for Paris, consequently leaving Hanagumi without a leader; thus a new character will be introduced here. To be replaced with Lieutenant Ohgami is the former leader of Hoshigumi, Rachette Artile - a rationalistic and distinct individual, who brings about serious problems to Hanagumi. The members are now in discord with Rachette. Meanwhile, Teikoku Kagekidan was being threatened by some irrelevant demons and a new type of anti-kouma mechas, (brought by an american company) appears and tries to replace the koubu-kai. Having made repeated mistakes due to the absence of Ohgami, Hanagumi is now faced with an unprecedented danger, while the abolishment of Teikoku Kagekidan Hanagumi is being schemed.
