First aired in 1993/1994.
- The Homecoming
Kira risks her life, and war with the Cardassians, to rescue a mythical Bajoran hero from a distant prison colony.
- The Circle
Relieved of her post and exiled back to Bajor, Kira helps to reveal the hidden force behind The Circle and a greater secret that could destroy them all.
- The Siege
While Sisko leads a daring last stand against the Bajoran takeover forces, Kira and Dax embark on a desperate mission to reveal the truth about the coup.
- Invasive Procedures
The crew must fight for Jadzia's life when a desperate Trill takes the group hostage and steals the Dax symbiont with the intent of transplanting it into himself.
- Cardassians
A young Cardassian, orphaned in the war and raised by Bajorans, causes turmoil on the station when his people attempt to reclaim him.
- Melora
After falling in love with a woman whose species is unable to walk in "normal" gravity, Bashir develops a technology that could free her of her wheelchair forever.
- Rules of Acquisition
A Ferengi female who has defied the law and disguised herself as a male risks it all when she falls in love with Quark.
- Necessary Evil
An attack on Quark's life brings Odo face to face with a five-year-old unsolved murder -- for which Kira was a prime suspect.
- Second Sight
Sisko falls in love for the first time since his wife's death, but the object of his affections may not be all that she seems.
- Sanctuary
Kira is torn when a displaced alien race arrives on Deep Space Nine and claims Bajor as its people's legendary homeland.
- Rivals
Quark feels threatened when a charming swindler arrives on Deep Space Nine and opens a competing bar. Meantime a sporting contest between O'Brien and Bashir becomes personal.
- The Alternate
Odo's mentor arrives on Deep Space Nine intent on resuming his search for Odo's true origin. After an accident in the Gamma Quadrant, they return to the station with a dangerous organism which soon breaks free.
- Armageddon Game
Bashir and O'Brien work to rid two alien races of deadly weapons, unaware that their hosts intend to sacrifice them as part of the peace process.
- Whispers
O'Brien returns from a security mission to notice that the entire crew has seemingly turned against him.
- Paradise
Sisko and O'Brien are stranded on a planet inhabited by humans who have rejected any form of technology. But is it really such a paradise?
- Shadowplay
Odo and Dax try to solve the mystery of a alien planet whose inhabitants are disappearing without explanation.
- Playing God
A trill initiate, Argen, a hopeful for The Joining comes to work with Jadzia in order to learn more about being joined. At the same time, the station faces a deadly threat from a new universe which is expanding at an alarming rate.
- Profit and Loss
When Quark is reunited with the love of his life, a Cardassian who is now a fugitive, he is ready to sacrifice everything to win her back.
- Blood Oath
Dax risks her life and her future with Starfleet to fulfill a blood oath made with three aged Klingons.
- The Maquis, Part 1
Sisko uncovers a Federation terrorist group, the Maquis, whose actions could start another war with the Cardassians over the colonies left behind in the de-militarised zone between Federation and Cardassian space.
- The Maquis, Part 2
Sisko and Gul Dukat join forces in an effort to avert a war between the Cardassians and the Maquis led by Sisko's old friend.
- The Wire
Bashir fights to save his Cardassian friend Garak, who is slowly being killed by a brain implant to which he is addicted. In order to find out enough about it to help Garak, Bashir has to dig deep into Garak's mysterious past and uncovers some surprising secrets.
- Crossover
A mishap in the wormhole sends Kira[ and [Julian Bashir into an alternate universe where Bajor is a tyrannical power and humans are slaves. Can Kira stop her ruthless double from killing Bashir?
- The Collaborator
Kira must investigate the man she loves (Vedek Bariel) when she learns he may be the Cardassian collaborator responsible for the massacre of forty-three Bajorans.
- Tribunal
O'Brien is arrested by the Cardassians and put on trial for a crime he insists he did not commit. As his colleagues on Deep Space Nine try to find out what he's been charged with, they discover a weapons shipment is missing with all the clues pointing to O'Brien.
- The Jem'Hadar
While on a camping trip to the Gamma Quadrant, Sisko and Quark are captured by the Jem'Hadar, the feared foot soldiers of the Dominion. Jake and Nog find where they are being held and then attempt to return to the station for help. After a warning from The Jem'Hadar not to enter the Gamma Quadrant, Starfleet sends a
Galaxy Class starship through the wormhole to confront the Jem'Hadar.