The Empire of Corpses is a story that takes place in 19th century Europe, and revolves around John Watson, who is scouted by the government to become a secret agent. However, Watson lives in a world where "Frankensteins"—human corpses that are re-purposed with a false soul in order to use them as labourers—are used to improve industrial development.

In the future, Utopia has finally been achieved thanks to medical nanotechnology and a powerful ethic of social welfare and mutual consideration. This perfect world isn't that perfect though, and three young girls stand up to totalitarian kindness and super-medicine by attempting suicide via starvation. It doesn't work, but one of the girls—Tuan Kirie—grows up to be a member of the World Health Organization. As a crisis threatens the harmony of the new world, Tuan rediscovers another member of her suicide pact, and together they must help save the planet...from itself.

The war on terror exploded, literally, the day Sarajevo was destroyed by a homemade nuclear device. The leading democracies transformed into total surveillance states, and the developing world has drowned under a wave of genocides. The mysterious American John Paul seems to be behind the collapse of the world system, and it's up to intelligence agent Clavis Shepherd to track John Paul across the wreckage of civilizations and to find the true heart of darkness—a genocidal organ.