Unleashing a devastating surprise attack, flying ninjas from the Land of Sky are seeking revenge against their old enemy Konohagakure. Despite his eagerness to join the fight, Naruto Uzumaki is held up by Shinnou, a mysterious doctor who requires his assistance to save an injured person. While delivering the wounded man to the hospital, Naruto has an unexpected encounter with Amaru—a stormy youngster from a neighboring village desperately looking for Shinnou's help.

Meanwhile, as the invaders withdraw to restore their forces, Tsunade seizes the opportunity to dispatch a small team including Sai, Shikamaru Nara, and Kakashi Hatake to strike down their base. Simultaneously, she commissions Naruto, Sakura Haruno, and Hinata Hyuuga to accompany Shinnou and Amaru on their journey. During this time, however, Orochimaru has his own schemes: he orders Sasuke Uchiha to bring him the doctor who specializes in the reincarnation technique.

As the escort group accidentally uncovers the sinister truth behind the attacks, tumultuous plans are set in motion. But even when confronted with an unforeseen reunion, Naruto does not waver in his endeavor to end the warfare and its disastrous effects.

[Written by MAL Rewrite]

Mary Smith is a clumsy girl with wild red hair who can't seem to do anything right. After moving in with her Great Aunt Charlotte, Mary finds herself lonely and bored, until one day she spies a cat which seems to keep changing color every time she sees it. Curiosity gets the better of her and she follows it into nearby woods. Deep in the forest, the cat takes her to a clearing with dead trees and brown grass, where the only sign of life is a cluster of mysterious blue flowers that Mary has never seen before. The gardener of the estate later tells her that the rare species is called "Fly-by-Night," and is said to be sought by witches for its incredible magical power. When the strange cat returns to her one night, Mary is led once again into the woods, but this time to an old broomstick hidden by a gnarled tree. After she clumsily squashes some Fly-by-Night against the broomstick, it begins to glow, whisking her off into the sky. Her wayward journey ends at the Endor College for Witches, where she is mistaken for a new student. And so, Mary must learn to look after herself in this marvelous new world of magic, where things are not always as they seem. [Written by MAL Rewrite]

Giovanni is a young boy who lives on the outskirts of a small rustic village. His mother is bedridden and his father has not returned home since leaving to work on a fishing boat. An outcast at school, Giovanni has only one friend: Campanella, the mayor's son. During the town's Festival of Stars, Giovanni starts to daydream atop a hill and looks up to find a steam engine train floating in the air. He boards the train only to find his friend Campanella already there. And so, the two begin their journey through the stars where they come across unusual people and visit many beautiful and haunting places.

After the events of 02, everything is finally getting back to normal. That is, until a strangely familiar icon starts showing up on computer systems around the Japan. And not just computer systems... TVs, mobile phones, video games; anything with a screen with online capabilities. And this icon seems to be looking for somone... Yagami Taichi, and Ishida Yamato, who defeated it several years before. Yes, it turns out that this jellyfish digimon is in fact Diablomon, the Virus-type Digimon that was defeated in the second movie. But this time, he's learned to make himself physical, and is sending thousands of copies of himself into the real world.

Koushiro and Ken devise a plan to rid the world of the virus once and for all, but it'll take the help of all the Destined, past and present. Once again, it's a race against time to put a stop to Diablomon's plot... but even that is cloaked in shadow.

Will the revival of Omagamon be enough to stop Diablomon a second time, or will the millions of copies prove enough of a power boost to shrug off the "Digimon Champion of Justice"? Of course, he hasn't seen the new breed of Chosen, nor the new techniques. It's a fight to the finish, with the destruction of Tokyo resting on the line. 

(Source: AniDB)