After a chaotic heist, Lupin and Jigen find themselves becoming caretakers of a baby boy, while a young sky pirate called Yutika is after their loot. Yutika is an inhabitant of the city-state of Shahalta, which has recently fallen to a shady minister. Soon, Lupin's gang and Yutika join forces to uncover one of Shahalta's greatest treasures, facing off against both Shahaltan authorities and Zenigata.

Lupin investigates the kidnapping of a former love in Italy, and is drawn into a game with an unknown enemy.

The elementary school student Rieko lives with her parents who are deaf and mute, and her younger sister. Rieko wishes to draw cartoons and comics that make people happy, and doodles comics of Bomberman and friends in her notebooks. An earthquake strikes during the night and ravages the city, leaving their neighbourhood a shambles. They travel to a shelter, but their parents' inability to hear and speak causes misunderstandings and conflict among the workers; Rieko helps resolve the situation while also keeping an eye on her younger sister. With support from volunteer worker Kyoko, an older girl from Tokyo, the community within the shelter begin to grow and understand one another. Rieko helps keep the younger ones amused with her drawings of Bomberman characters, including a comic of the heroes and villains putting their differences aside to help each other when the battle arena comes down on top of them.

In the story, the seasons have changed and it will soon be the second spring. Tatsuya and Miyuki have finished their first year at First Magic High School and are on their spring break. The two go to their villa on the Ogasawara Island archipelago. After only a small moment of peace a lone young woman named Kokoa appears before them. She has abandoned the Naval base and she tells Tatsuya her one wish.

Police officers around Tokyo are being murdered by an unknown assailant. When Ran witnesses an attempt on the life of one of her friends in the police, she loses her memory. Now, Conan and Inspector Megure must find the murderer while Ran attempts to regain her lost memories.

Momoko, who attends a special school, is both mentally and physically disabled. Every morning she becomes peevish because she can't go to the ordinary school with her twin brother Riki.

This is a story of two siblings, Anzu and Naruto Nozaki, heirs to the fabulous Nozaki fortune. Naruto appears to be an overbearing sis-con. In fact, he's madly in love with Anzu, because they're not blood-related. He confines her to the family mansion for "security," depriving her of companionship and a real life. At age 16, she starts to rebel. She smuggles in a kitten as a pet (Naruto hates cats) and then escapes in a delivery truck. Naruto catches up to her and realizes that she can't be confined like a bird in a cage. He agrees to let have a normal life, but just then, tragedy strikes

Rising pop star Mima quits singing to pursue a career as an actress. After she takes up a role on a popular detective show, her handlers and collaborators begin turning up murdered. Harboring feelings of guilt and haunted by visions of her former self, Mima's reality and fantasy meld into a frenzied paranoia.

Tomoe Enjou is attacked by bullies from his old school and saved by Shiki Ryougi. He asks her to hide him at her place and admits that he killed someone. Several days later, there are still no broadcasts about the murder as if it didn't happen... and when the victims are found, they're alive and unharmed.

Before the release of the final 7th movie, a remix work "Kara no Kyoukai Remix-Gate of seventh heaven-" comes out in theaters on March 14, 2009. This remix collection extracts the key themes and scenes from first six movies. The hour long movie is organized in chronological order, beginning from the 2nd movie, followed by the 4th, 3rd, 1st, 5th and 6th. It's a mixture of mostly existing scenes, and some new scenes.