Season 3
The team faces escalating conflicts with both old and new adversaries, including the Wraith and a deadly new faction. The discovery of a potential game-changing technology introduces new ethical dilemmas, while relationships within the team are tested under growing pressures.
Episodes
1. No Man's Land (2)
The team desperately attempts to stop two Wraith hive ships from reaching Earth. Sheppard must rely on an old foe to rescue McKay and Ronon.
2. Misbegotten (3)
The Atlantis team must decide the fate of a colony of Wraith they have turned into humans. Dr. Weir must defend her leadership when she is evaluated by the I.O.A.
3. Irresistible
Sheppard's team meets an obnoxious man who is adored by all thanks to a secret that he carries -- and who has an unexpected effect on them.
4. Sateda
Ronon Dex is captured by the Wraith and returned to his homeworld, where he is haunted by his past as he is forced to once again become their prey.
5. Progeny
Weir and the team visit an advanced civilization that split off from the Lanteans thousands of years ago, but discover that they may not have left Atlantis in peace.
6. The Real World
Elizabeth Weir wakes up in a mental institution, where she is told that the expedition to Atlantis and the Stargate are figments of her imagination.
7. Common Ground
Colonel Sheppard finds himself the prisoner of a Genii commander, along with a desperately hungry Wraith who has been separated from his hive.
8. McKay and Mrs. Miller
Rodney McKay is reunited with his estranged sister back on Earth, who has given up a brilliant career as a scientist to raise a family.
9. Phantoms
Sheppard and Ronon are influenced by a mind-altering device created by the Wraith while on a mission to rescue a lost team.
10. The Return (1)
The Atlantis expedition is stunned to learn that a ship full of Ancients is returning to reclaim their lost city.
11. The Return (2)
The Atlantis team goes against orders to try and save Atlantis from Replicator control -- and to rescue General O'Neill and Richard Woolsey, who are trapped in the occupied city.
12. Echoes
The inhabitants of Atlantis begin to suffer ill effects when the planet's whale population begins migrating to the island city, bringing an unexpected harbinger of doom.
13. Irresponsible
The team finds Lucius Lavin manipulating the people of another hapless planet, using Ancient technology to pose as an invincible hero.
14. Tao of Rodney
After an Ancient device gives Rodney superhuman powers, his enhanced brilliance is checked only by his impending death -- unless he can learn how to ascend.
15. The Game
Sheppard and McKay discover that their competitive video game has been controlling a planet of real people, who now stand on the brink of war.
16. The Ark
The team discovers the last of a civilization in suspended animation, whose survival is at risk when their station is critically damaged.
17. Sunday
The team tries to relax during a mandatory day off, until an explosion leaves three people dead -- and reveals that one scientist is a walking time bomb.
18. Submersion
The team discovers an Ancient drilling station deep beneath the surface of the ocean, only to find that a Wraith queen is still alive there.
19. Vengeance
The Atlantis team investigates the disappearance of one of their allies, only to find an old enemy engineering a race of powerful monsters.
20. First Strike (1)
An unstoppable energy weapon leaves Atlantis under siege after Earth launches a preemptive attack against a very powerful enemy's homeworld.