2067: Isolation: Japan seals herself off from the eyes of the world in the face of unilateral international policy setting strict limits on the use of robotic technology. The island nation exists only behind a veil of seclusion. No soul shall enter. No soul shall leave. 2077: Revelation: The veil is breached. Japan is infiltrated by agents of the organization S.W.O.R.D., a fighting force operating outside of the protection of the United States and her allies. Their mission: Determine if the Japanese are developing banned robotic bio-technology, forbidden due to its threat to humankind. In the battle between machine and man, humanity stands to suffer most.

The Isle of Koumi, a beautiful island in the Pacific Ocean. On the island, people pass an old legend down from generation to generation that there was the Seabed Palace, an ancient ruin at the bottom of the sea, where the treasure of 2 female pirates, Anne Bonnie & Mary Reed (who really existed 300 years ago), was left. When Conan and his friends visit Koumi Island while on vacation, they meet some treasure hunters. There was something suspicious about them.