Battlestar Pegasus follows the story of the crew of BS 74 Pegasus. The story begins with Rowan Gaia, a young man making his living as a farmer, haunted by his wife's death. A group of soldiers including Rowan's ex-girlfriend, Commander Sharon "Boomer" Valerii, Captain Lee "Apollo" Adama, Captain Kara "Starbuck" Thrace and Lieutenant Junior Grade Anatasia "Dee" Dualla come to Rowan's family's farm to re-enstate him and his father back into the Colonial Marines. Discovering Sharon is the Co of the battlestar Pegasus, Rowan returns to the Marines and regains his rank as Lieutenant Junior Grade and joins the Pegasus crew. Upon Rowan's arrival and his recommissioning by President Laura Roslin and Vice President Kimberley Sibylla, The Twelve Colonies of Kobol are attacked by The Cylons, who have been absent for 40 years.

Now the crew of Pegasus and the Colonial battalion must fight a devastating war against the Cylons and take back the planets that are in the iron hand of the Cylons. A BSG AU mini-series.