Stargate Atlantis

After their temporary alliance with the Wraith backfires, the Atlantis team must find a way to stop two Wraith hive ships that are headed for Earth.

After turning a Wraith hive ship crew into humans, the Atlantis team must decide on their fate. Meanwhile, Dr. Weir finds herself under the scrutiny of Richard Woolsey and the I.O.A.

While looking for suitable stargates to harvest for their new Intergalactic Bridge, the team comes across a small village with a revered leader.

Exploring a village, the team is suddenly attacked and taken prisoner. It turns out that Ronon (Jason Momoa) had visited the planet before, and unknowingly lured the Wraith there.

Scouring the Atlantian database Dr. Rodney McKay (David Hewlett) discovers a reference to an abandoned Ancient testing site.

Waking up in a psychiatric hospital outside of Washington D.C., Dr. Elizabeth Weir (Torri Higginson) is shocked to discover that her entire experience in Atlantis over the last two years was solely a figment of her imagination.

Summoned to a planet by a communication code they had previously given their Genii allies, the team is ambushed by Kolya (Robert Davi), who has now created his own faction of Genii after being forced from the inner circle of the Genii leadership. While the rest of the team manages to escape, Sheppard (Joe Flanigan) is taken prisoner.

Rodney McKay (David) is called back to earth to convince his estranged sister, Jeannie Miller, to assist the Air Force in implementing an important mathematical proof that has application to one of McKay's experiments. Having not seen her in four years, McKay finds it difficult to pry Jeannie away from her family, so he has no choice but to disclose the existence of the Stargate program to her.

Major Leonard's team fails to check in with Atlantis while on a mission exploring an anomalous energy spike. Because the anomaly also makes radio transmission impossible Sheppard must assemble a team in search of the missing men.

While testing the new McKay-Carter intergalactic gate bridge, the Daedalus detects an Ancient Atlantian warship, traveling at just below light speed and heading towards Earth. Damaged in battle during the war with the Wraith, the Ancients aboard this ship fled the Pegasus galaxy and have spent thousands of years in stasis.

General O'Neill (Richard Dean Anderson) and Richard Woosley (Robert Picardo), the lone survivors of the replicators' bloody coup of Atlantis, hide out in an abandoned section of the city. Knowing O'Neil gave General Landry (Beau Bridges) a standing order to nuke Atlantis if a foothold situation should ever arise, the two lay low awaiting their fate.

The whales of Lantea congregate around the city and the inhabitants of Atlantis begin to suffer ill effects. Are they there to communicate or attack?

Sheppard (Joe Flanigan) and his team hear of a great warrior with stories of defeating both the Genii and the wraith and decide to seek him out in hopes of making a powerful new ally. But when they learn this great warrior is none other than Lucius (Richard Kind) they believe he's up to his old tricks again.

Trying to preserve power by turning off all the non-essential systems the Ancients recently activated before being killed by the replicators, Rodney McKay (David Hewlett) mistakenly is hit by an energy beam from a mysterious device.

Major Lorne (Kavan Smith) discovers a planet with dozens of satellites in geosynchronous orbit. However, inhabitants on this planet are no further advanced than being themselves in a renaissance period and even stranger, he discovers a flag baring Rodney McKay's (David) likeness. Informing Rodney and Lt. Col. Sheppard of this, the team realize a game they had found years earlier on Atlantis.

Investigating what appears to be an abandoned space station inside a hollowed out moon Rodney McKay (David Hewlett) mistakenly brings one of it's scientists out of stasis. The scientist Henrick (Joris Jarsky) explains to the team that the base was the last effort by his people to avoid the repeated culling they've endured for generations at the hands of the Wraith.

With the entire city ordered to take a personal day the team does their best to unwind and enjoy their leisure time. Without warning a mysterious explosion rips through the city killing and injuring unsuspecting citizens.

Deep underwater, the team scours the ocean floor looking for a mobile geothermal drilling station the ancients left dormant in hopes of unleashing near limitless power from beneath the planet's surface. The team finds the drilling rig and cautiously explores the station the Ancients chose to abandon.

After helping relocate the Taranans, the Atlantis team realizes they haven't heard from the village in an unusually long period of time. Wondering what happened to them, Weir (Torri Higgenson) sends Sheppard (Joe Flanigan) and his team to go investigate their village.

With the arrival of the Apollo to Atlantis comes intel that the Replicators appear to be building a large armada to directly attack earth. Planning to strike first, Col. Ellis with the aid of the Atlantis team launches a surgical strike nuking the entire armada. Believing that all imminent danger has been avoided the team is shocked when a satellite housing a stargate takes up geosynchronous orbit