A man wakes up with complete amnesia. His only posession? A passport with the name "Ryosuke Shimano" and the port of entry, Marseille. Speaking with to Alan, the mysterious man next to him, he learns France has been occupied by the German army.

It's spy vs. spy as D-Agency and Wind Agency both race to prevent Japan's "Grand Strategy" from falling into enemy hands.

Aaron Price, Far East correspondent for the British Times, investigates the true identity of Lieutenant colonel Yuuki, the man rumored to have founded D-Agency. Flipping through the Military Preparatory School's list of past enrollees, his eye is drawn to a boy who passed the entrance exam at the top of his class, but was expelled for violence. His name? Akira Arisaki.