Telling ghost stories is a favorite past time of Mai Taniyama and her friends—that is, until she meets 17-year-old Kazuya Shibuya, the man sent by Shibuya Psychic Research Center to investigate paranormal activity at a supposedly haunted school. When Mai gets caught in a dangerous situation, she is rescued by Kazuya's assistant. Saving her lands the assistant incapacitated, and Kazuya demands that Mai become his assistant, instead...

Vampires, robots, sorcery… And that’s all before Gym Class! Welcome to Mahora Academy, an all-girls school where the impossible and the enchanting are a part of the curriculum. It’s the start of the new school year and emotions run rampant as the girls of Class 2-A meet the newest staff addition – Negi Springfield. A ten-year-old Welsh born prodigy, Negi has more problems than he has students. As a wizard-in-training, this academic appointment is the final requirement in his quest to become a Magister Magorum. But if he messes things up and the girls find out, existence as an exotic ermine will be his fate!

Iroe Genma is a high school student often referred to as the "Elder Sister" despite her short height. She is the president of the school Model Club, which is dedicated to building plastic models of various things such as cars, boats, and robots. With her two classmates, Hazuki "Okappa" Okamoto and Makina "Makimaki" Sakamaki, the small group are often sidetracked.

Generally, it is believed that Charles Lutwidge Dodgson (Lewis Carroll) wrote two books about Alice. However there is another Alice book, Endless Alice. Somehow, the pages of the books were taken apart and they are lying in girls' minds.Kirihara Aruto likes Alice books very much, and he likes to imagine his own Alice. One day, he happens to meet a girl flying in the air, and she looks exactly like his Alice. Her name is Arisugawa Arisu. She is one of Alice. The Alice have fragments of the Alice book in their minds, and they fights against each other to collect these fragments. If one can collect the whole fragments to complete the book, it will grant any wish.

The story is centred around Negi Springfield, a ten-year-old wizard from Wales, who dreams of becoming a Magister Magi like his missing father, a special wizard who uses his powers to help normal people, using covers such as working for NGOs. Initially appointed as an English teacher at Mahora Academy in Japan he becomes a teacher to a middle school class of 31 older girls. However, the peaceful school life is quickly disturbed as people from his father's past appear and Negi has to form contracts with various students to overcome the new dangers. Finally he embarks on a journey to the Magic World together with his partners to find his long-lost father. This film is the climax to their adventures depicted in the Shiroki Tsubasa Ala Alba and Mou Hitotsu no Sekai OVAs.