Season 6 of Deep Space Nine marks the height of the Dominion War arc, as it depicts the Federation and its allies in a desperate struggle against the Cardassian-Dominion alliance, which has occupied Deep Space Nine and the Bajoran system.
Stardate: Unknown. Borrowing a captured Jem'Hadar attack ship, Sisko and crew embark on a mission to destroy the hidden base where all of the ketracel-white is stored for the entire Alpha Quadrant.
Stardate: Unknown. Sisko and his crew crash on a barren world when their commandeered Jem'Hadar ship is shot down. They encounter Jem'Hadar who crashed there earlier, and have taken Nog and Garak hostage in exchange for medical aid for their Vorta overseer.
Stardate: Unknown. Serving with his recruit son aboard a Klingon vessel, Worf finds his relationship with his son strained. Meanwhile, strained relationships abound on DS9 between Major Kira and Gul Dukat.
Stardate: 51145.3. After forming an attack plan on the Dominion, Sisko relinquishes command of the Defiant to Dax after accepting a promotion. On DS9, the resistance faces discovery when Odo links with another changeling.
Stardate: Unknown. The Federation attacks DS9 in hopes of keeping the mine field in the wormhole intact, while the Dominion waits entrance to the Alpha Quadrant from the other side.
Stardate: 51247.5. Suddenly desiring to wed within the week on DS9, Worf and Jadzia go through their own Klingon rituals: Worf on a four day bachelor party with the male members of the crew & Jadzia deals with her prospective mother-in-law, who totally opposes the idea of "an alien" marrying into her Klingon household.
Stardate: Unknown. Major Kira takes a romantic interest in a Bajoran radical from the other universe who transports himself into her universe and onto DS9.
Stardate: Unknown. A group of genetically engineered humans are brought to Dr. Bashir on DS9 in hopes of integrating them with the rest of the universe.
Stardate: 51408.6. After being attacked by Cardassian forces, Sisko gets stranded with a very psychotic Gul Dukat, who was being transported to his trial. Meanwhile the crew of the Defiant races to rescue survivors.
Stardate: 51474.2. An attack by the Dominion on Sisko's ship endangers Dax and her crew aboard as she leads them into an anomaly that shrinks them to a very minute size. Unfortunately, they were being held stable by Sisko within a tractor beam, which was discontinued during the attack.
Stardate: 51597.2. Worf and Jadzia travel to the badlands to procure some information on the Dominion from a traitorous Cardassian. Bashir wants to engage in a holo-suite spy simulation, but O'Brien prefers to brush up on his tongo game after watching Jadzia lose to Quark.
Stardate: Unknown. After receiving some disturbing information from Gul Dukat, Major Kira seeks Sisko's approval as Emissary to travel back in time to find out the truth about her mother. Meanwhile, Chief O'Brien and Dr. Bashir discuss a holosuite program surrounding the Battle of the Alamo.
Stardate: Unknown. Dr. Bashir's plans to attend a medical conference at a breezy resort are canceled when Starfleet Intelligence boards DS9, suspecting the doctor of treason.
Stardate: Unknown. Sisko runs afoul of Kai Winn when he removes a Bajoran artifact from an archaeological dig after he receives a vision from the Prophets.
Stardate: 51825.4. Jake and Nog's runabout comes under attack from the Jem'Hadar. They are rescued by the Valiant, a ship manned by Red Squad, a elite group of young Starfleet cadets.
Stardate: Unknown. Quark's mother and the Grand Nagus show up on DS9, announcing a new amendment to the Bill of Opportunities he has instituted on the home planet of Ferenganar, and then follows up with the announcement, that, due to the new amendment, chaos has followed and he has been deposed.
Stardate: 51948.3. As the Defiant races to a shipwrecked officer who is days away, the crew keeps in contact with her. Meanwhile, Jake follows Quark's latest scheme for story research.
Stardate: Unknown. When Sisko is picked to head up an attack on the Cardassian homeworld, the Prophets appear to him in a vision, warning him of impending doom if he leaves the station.