There's a war going on in ancient Kyoto. A war fought in shadows, between the forces of the Shogunate's armed enforcers, the Shinsengumi, and the vampire-like Ronin warriors known as the Rasetsu or Furies. And trapped in the middle is a young woman disguised as a man. Seeking her missing father, Chizuru Yukimura comes to Kyoto only to find her fate forever intertwined with the destinies of Shinsengumi Vice commander Toshizo Hijikata and his elite force of swordsmen. Because Chizuru's father has created a secret elixir that enhances the user's strength, speed and healing, and the furies will do anything and kill anyone in order to control that power!
Secretly operating his cruiser as a casino at sea isn’t enough for mafia don Lukino Marcano. He’s also looking for the gold-laden boat wreckage worth the budget of a small country! Lupin sniffs out the plan to recover this long-lost treasure and brings along his partners Jigen, Goemon, and Fujiko for the ride to crash Lukino’s party.
Deep-sea archeologist Hiroshi Ibuki is the member of the digging team working at the bottom of the sea hoping to uncover the origins of Earth's existence but instead uncovers a mysterious colony of bacteria which gives off light similar to the Aurora Borealis. The ancient bacteria, once revived, attempt to make the world habitable for themselves - a process that would bring Earth back to its early primal form, killing all current life in the process.
When Fujiko secures a file that documents the location of the fabled Columbus Egg – a mystical relic that controls the weather – she quickly recruits Lupin and the gang to track down the long-lost treasure. Unfortunately, her memory of Lupin and his friends are wiped out almost entirely. Can the gang restore Fujiko’s memory before the Egg falls into the hands of a madman?
Less than a year after Geist activated the Death Force, which decimated most of Jerra's population, he has kept himself busy by dismantling the Death Force machines one by one. Most of the remaining human population have fled to a remote haven run by a warlord named Krauser. Krauser is another MDS unit, MD-01, who has a technology that hides his mobile fortress from the Death Force.