Heliopolis, a so-called neutral space colony was holding a top-secret weapons research facility, producing Gundams for the Earth Alliance. ZAFT, which is composed of Coordinators (genetically modified/upgraded humans), attacks Heliopolis, stealing 4 out of the Alliance's 5 Gundams. In the battlefield, civilian Kira Yamato stumbles upon the Strike, the last remaining Gundam of the alliance, and is forced to pilot it. In the midst of battle he encounters his best friend, Athrun Zala, as one of the hijackers of the 5 Gundams, who sides with ZAFT. Being a Coordinator, he is the only one who can pilot the Gundam. But Kira is not with ZAFT, even though they're his own kind, nor the Alliance. Since the Alliance is the only place he could turn to at the time, he sides with them. He pilots the Gundam to protect his friends, and to fight his best friend, which pains both of them. It's a war between individual beliefs.

Cosmic Era (C.E.) 70, the "Bloody Valentine" tragedy escalated into a war between the Earth Alliance and ZAFT. It became severe. Making many sacrifices, they achieved a truce after the second battle at Yakin Due. However, this truce didn't subdue the conflicts between Naturals and Coordinators completely.
During the war, Shinn Asuka was involved in Earth Alliance's intrusion into Orb. While he was escaping from the fire, he lost his parents and little sister before his very eyes. When he was deep in sorrow gripping his sister's cellular phone, which is his only memento of her, a gundam, which was the principal cause of the war, was flying over his head. Being disappointed, he left Orb and went to PLANT.
In C.E. 73., he became a ZAFT soldier.

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