What happened in Xenosaga: Episode II? (RECAPitation)

Released by Monolith Soft in 2004 on the Playstation 2, Xenosaga Episode 2 would be the second of a 3 episode saga. Directed by Kou Arai and written by Norihiko Yonesaka, the story would be based by the original draft by series creator Tetsuya Takahashi. For story, the game features the return