Complex sentence: Martin Soap, who has been providing information to the Punisher, and taken to Rykers Island, to confront Jigsaw there, at which time, the flashbacks catch up to the story, and the remainder of the game takes place in the present.
Split into simpler sentences: Martin Soap, who has been providing information to the Punisher, and taken to Rykers Island, to confront Jigsaw there. At this time, the flashbacks catch up to the story, and the remainder of the game takes place in the present.