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The fight began during the Covenant civil war. The Master Chief was transported there by Gravemind using Delta Halo's teleportation system. Meanwhile the Civil War Raged and while Master Chief rescued some Marines, the Flood managed to take over In Amber Clad and warp jump into High Charity. The Flood then took over all the Pelicans using brain forms and spread out over the station. Loyalists and Separtists battled each other and the Flood, while Master Chief fought his way to a fuel cell to enter the Forerunner Ship in the middle of the city, and find Truth. The Flood finally won control over High Charity and Gravemind Teleported onto the ship. Cortana stayed on High Charity and her fate remains unknown.