Story Missions
- Prologue: Awakening
- Chapter 1: New Los Angeles
- Chapter 2: The New Frontier
- Chapter 3: Builders of a Legacy
- Chapter 4: The Ganglion Menace
- Chapter 5: Ma-non Maneuvers
- Chapter 6: Dark Matters
- Chapter 7: Treachery
- Chapter 8: The Gathering Storm
- Chapter 9: Warriors of Wroth
- Chapter 10: The Zu Pharg Menace
- Chapter 11: Consequences
- Chapter 12: Into the Core