After the events of the previous film, the 17 years-old Sukeban Deka III, Yui Kazama, works for the Juvenile Security Bureau along with her older sisters Yuka and Yuma. This organization is led by politician Kuraudo Sekin, who fights juvenile crime in heavy-handed manners, to the extent to equip his student agents with triple-bladed yo-yo weapons. However, when Sekin's methods become too zealous, Yui quits the bureau and refuses to undertake undercover missions for them. It is soon discovered that Sekin's actual goal is to overthrow the Japanese government, and the Kazama sisters, along with a gang of young outcasts, have to stop him.

The 8th All-Japan Road Race Championship. The internationally ranked A-level SUGO circuit is on the edge of its seat as the 500 cc final draws near. Akio Kitano and Keishi Ooki face off: private team versus factory team. In the final lap, Akio is overtaken by Ooki and loses by a hair. The reason for his defeat? The difference between their two machines. With their scores tied, the two wait for the next match to settle the score for good.

A highly anticipated cultural festival is less than a week away for the students of a local high school when mysterious, seemingly paranormal events start occurring within their building. A piano plays when no one is in the room; the power continually shuts off, seemingly at random; footprints are left behind by an unseen presence; objects appear to levitate and are hurled across the room. Concerned about the strange phenomena, six students, advised by Professor Yamakawa, form a research team and investigate the strange goings-on. One of the students is Reiko Kudo, who has ESP and a family history with the occult. As the investigation ensues, a disturbing story from the past emerges from the woodwork, culminating with an ESP confrontation on the day of the festival...

Six year old Momoko and Motoharu are turned suddenly into High school students. And more than that they have now psychic powers.