When Commander Adama learns that Kara disobeyed orders and Jumped to Caprica on orders from President Roslin, he demands the president's resignation, with the implied threat of a military coup. Roslin refuses his demand and sparks a confrontation.

With Adama out of action, Colonel Tigh takes his position as commander of the Galactica. Boomer is in jail, and the cat's out of the bag - she's a Cylon.

Democracy is brought back to the fleet and soon with it come hardball politics and potentially deadly intrigue.

Tigh imposes martial law and threatens to split the fleet as Lee works to free President Roslin and organize democratic resistance.

President Roslin's fragile coalition is put to the test in the first part of a two-part story. Apollo, who has sided with Roslin, runs into a conflict with Zarek and his accomplice Meier.

Adama heads to Kobol to find Roslin, reassembles the fleet and heads down to Kobol himself to find the presidential party in search of the "Tomb of Athena" which allegedly leads to Earth. Apollo hangs out with Starbuck , Zarek tries to keep his cronie off plotting with Boomer who is unaware of tension building between Helo and Tyrol.

A reporter is sent to Galactica to chronicle the harsh realities of life during wartime.

Sharon informs Adama that the Galatica has been infected with a computer virus that is tampering with the basic ship functions and is scanning them for weaknesses. All this is preparation for a major assault by the Cylon Raiders. So with the clock ticking

Battlestar Galactica was not the only Battlestar to have survived the cylon attack, The Battlestar Pegasus also survived.

As President Roslin nears death, Dr. Gaius Baltar must be groomed for the worst case scenario. Roslin orders the death of Sharon's unborn child. A sabotaged Viper leads to an investigation that uncovers a movement of people seeking peace with the Cylons.

Pegasus' new commander Fisk is murdered by black marketeers, and Lee is charged with solving the crime. Roslin seeks to stamp out the black market by introducing new trade regulations.

Chief Tyrol is plagued by terrifying dreams and seeks the aid of a priest. Kara leads a rescue mission to Caprica. Roslin and Baltar go head-to-head in a presidential debate that changes dramatically with the discovery of a habitable planet.

Tigh, Tyrol and Anders lead the Resistance on New Caprica to increasingly deadly attacks against the Cylons. Kara finds herself trapped in a new life with Leoben Conoy, and Duck makes a fateful decision. Meanwhile on Galactica, Adama struggles with the question of whether to return to New Caprica to mount a rescue attempt.

Sharon helps the Resistance on New Caprica as Adama leads Galactica on a dangerous rescue operation. Tyrol races to save Cally from the execution squad. Meanwhile Anders uncovers treachery among the humans. Number Three meets the Oracle Selloi after having strange dreams about the temple.

Tigh must decide the fate of his wife Ellen after the assistance she rendered to the Cylons. Lee struggles with his assignment to protect the civilian fleet on its journey toward Earth while Adama returns to New Caprica with just the Galactica. The Resistance coordinates an attack on the Cylons just as Galactica arrives. As the Cylons begin to lose control, Number Three vows to put a final end to the New Caprican experiment.

Lingering feelings of rage lead Saul Tigh and Kara Thrace to cause problems aboard Galactica between the survivors from New Caprica and those who stayed with the fleet during the Occupation. Baltar assists the Cylons in an attempt to stay alive and uncovers details about Cylon civilization. A Cylon baseship falls victim to a mysterious disease.

Apollo formulates a plan that threatens the very existence of the Cylon culture. Adama and Roslin must decide whether to follow through on the plan to use a biological weapon against the Cylons. D'Anna Biers (Number Three) believes Baltar knows who created the virus that infected and disabled the Cylon baseship. She is willing to take extreme measures to learn the truth.

The Colonial fleet faces starvation when the food-processing machines are contaminated. Kat plays a vital role in the success or failure of the "Passage" through space.

Now on board Galactica, Baltar faces charges of treason. He contemplates suicide with the help of Number Six. Questions remain about his true identity. Is he a Cylon or isn't he? Apollo shows off the new drinking establishment on Galactica, Joe's Bar, to Tyrol. Apollo thinks about Kara and wonders whether his marriage to Dee is worth saving.

The Sagittarons allege that a doctor is discriminating against them. As Helo investigates, he becomes concerned that the doctor may even be murdering patients. Meanwhile, Athena unwittingly brings Hera to the doctor for treatment.

Amid a heated labor dispute, Tyrol asks the imprisoned Baltar for advice. Seelix becomes involved after she is turned down for flight training.

Kara continues to have dreams about Leoben Conoy and the mandala she painted at her old apartment on Caprica. While on patrol in her Viper, she encounters a Cylon Heavy Raider. When Tyrol cannot verify Kara's claim that the Cylon ship struck the Viper, Admiral Adama and Lee become concerned about her mental stability.

When Baltar's representatives face assassination attempts, Adama asks Lee to protect Baltar's lawyer. After taking on the assignment, Lee seeks to play an active role in Baltar's defense.

Baltar's trial testimony threatens the very stability of the fleet. Lee assists Romo Lampkin in Baltar's defense. Some in the fleet begin to feel that Baltar is divine. Though he dismisses such beliefs, Number Six suggests that the followers may know more about his true nature than Baltar does himself.

As Baltar's trial comes to a conclusion, key members of the fleet discover that they may be the Final Five Cylons. Tigh attempts to decipher the strange music he is hearing in his head, while a Cylon fleet approaches.

During the Cylon attack, Sam Anders has a strange encounter with a Cylon Raider. The crew of the Galactica view Starbuck's return with suspicion and doubt. Gaius Baltar takes refuge with a group of women who believe he has the power to heal others.

The Cylons learn that the Final Five are in the Colonial fleet. Some of the Cylons want the Cavil model to stop lobotomizing the Raider ships. Starbuck desperately tries to convince the others that the fleet is going the wrong way in their search for Earth.

Gaius Baltar sets off a debate on religious freedom when he promotes his belief in a single God.

President Roslin faces challenges as the Colonials plot with Cylon rebels to destroy a Resurrection Hub.

With President Roslin missing along with the cylon base ship a new president must be decided on. Galactica goes on a search for the missing base ship and the Galactica crew members that were on board.

Loyalties are made clear when Gaeta orchestrates a coup d'état of the Adama regime. Both prisoners and lives are taken as many of the fed up people work to take over Galactica.

President Roslin faces off against Tom Zarek and Lt. Gaeta as they try to take control of the Colonial fleet. Both the alliance with the rebel Cylons and Adama's life are at stake.

With Galactica on the verge of falling apart, Admiral Adama readies the ship for what could be its final mission, as Baltar's Six warns that humanity's final chapter is near.

Adama and the Galactica crew stake the survival of the human race on their plan to rescue Hera from the Cylon colony in this, the series finale.