It is the second year of the Kowa Period. The world has unified around the reorganize United Federation of Nations, and has enjoyed days of continuing peace, but now, that peace suddenly comes to an end. Suzaku, while travelling as the masked man "Zero" accompanying Nunnally on her visit to the refugee camp, is defeated by a mysterious Knightmare Frame, and the two of them are taken away. Following secret orders from Schneizel, Kallen, Lloyd and Sayoko infiltrate Zilkistan, the Land of Warriors, where they are attacked by a mysterious Geass user. There in Zilkhstan is a person named C.C., known to the assailants as the "former master". In the indomitable kingdom which once conquered even the great army of the Holy Britannian Empire, what do the people desire? Hope, or despair? The people of Zilkhstan Palace certainly know of Geass. What are they, and C.C., planning?
Munich, Germany, 1923. Two years have passed since Edward Elric was dragged from his own world to ours, leaving behind his country, his friends and his younger brother, Alphonse. Stripped of his alchemical powers, he has been all this time researching rocketry together with Alphonse Heiderich, a young man who resembles his own brother, hoping to one day find a way back home. His efforts so far had proven fruitless, but after lending a hand to a troubled gipsy girl, Edward is thrown in a series of events that can wreak havoc in both worlds. Meanwhile, at his own world, Alphonse Elric ventures deeper into the mysteries of alchemy in search for a way to reunite with his older brother.