Beka decides to leave the crew to fight for themselves, but after all of the promises that everyone will be reunited, Trance tells them that they will never be as they are again. When the Magog Worldship finally re-encounters the Andromeda after two years, Rommie and Harper race to take the Arkology to slipstream, Rhade must teach the inhabitants to defend themselves, and Dylan and Trance fight off the invading Magog. But as the Andromeda becomes covered in swarmships, Trance tells Dylan that he - and only he - may escape this alive.
The Commonwealth spanned three galaxies and a myriad of cultures. Dylan Hunt, captain of the star ship Andromeda, was frozen in time and awoke three centuries later to find the Commonwealth had fallen.
To fight back the chaos among the stars, Hunt must use the Andromeda to restore the Commonwealth and bring unity to the galaxy once again. He recruits a mercenary, Tyr Anasazi, and the crew of the Eureka Maru: Captain Beka Valentine, Engineer Seamus Harper, Physicist Rev Bem, and Medical Officer Trance Gemini.
After discovering the Spirit of the Abyss and its powerful weapon, the Magog Worldship, the need for the Commonwealth is greater than ever. 50 member worlds are finally recruited, and the reconstruction of the Commonwealth is finally truly underway.