It's the start of the war between the Systems Commonwealth and the Nietzschean fleets. Captain Dylan Hunt and his ship the Andromeda Ascendant try to flee the first Nietzschean attack to warn the Commonwealth. In his attempt to escape, the Andromeda and Captain Hunt are caught in the event horizon of a black hole and frozen in time for 300 years.

The crew of the Eureka Maru with Captain Beka Valentine try to salvage the Andromeda to sell for a Nightsider's ransom. After the Andromeda is pulled free, Hunt is unfrozen and forced to defend his ship against the salvagers and the Nietzschean mercenaries lead by Tyr Anasazi.

Dylan and the crew of the Eureka Maru agree to join forces and become one team aboard the Andromeda Ascendant as they set forth on his mission to restore the Systems Commonwealth.

Captain Dylan Hunt must save the Andromeda from the Nietzscheans, who are trying to persuade Tyr to help them destroy the ship and rebuild his Nietzschean life. His new life would include a wife to carry on his lineage.

Dylan is taken captive and forced to admit that he killed the Mobius leader and overthrew the Mobius government more than 300 years ago.

Gaheris Rhade sets out to reshape the universe according to his will and restore order amid the chaos