Lupin & Jigen have their sights set on a treasure called the Little Comet, which is located in the heavily fortified country of East Doroa. During the heist, Jigen is almost killed by a sniper named Yael Okuzaki. His specialty is preparing tombstones for his targets before executing them. It's said that no one can survive after Yael makes their tombstone.

A yakuza boss hires Goemon Ishikawa, a modern day samurai, to protect him aboard his cruise ship casino. Everything goes sideways when the famous thief, Lupin the Third, tries to rob the vessel. Lupin's being hunted by a powerful and mysterious man: the so called “Ghost of Bermuda.” With Goemon's employer dead in the ensuing chaos, his honor is at stake, and the only way to preserve it is with blood. But this opponent is like no other, and to make things right, Goemon may need to sharpen not only his sword, but himself as well!

Fujiko Mine, the devastating femme fatale whose only loyalty is to her desire, befriends a young boy whose late father hid away a fortune. A killer is on the boy's trail and it's up to Fujiko to stop him: but where do her interests really lie?

Inspector Zenigata pursues Lupin as the prime suspect behind a terrorist attack. But when he manages to confront the famous thief, he quickly deduces that the bomber is a second, fake Lupin. Now, it's up to Zenigata to capture both Lupins and solve the mystery behind the bombing.

The story follows Lupin and his team as they seek a treasure on a mysterious unmarked island.