ADRIFT

Original air date: September 28, 2007
When Rodney McKay (David Hewlett) realizes Atlantis has started shutting down artificial gravity and collapsing protective shields to compensate for a damaged power system, he turns off all non-essential systems. But when the problem persists, McKay is forced to collapse the shield to the point where it is only protecting Atlantis’ main tower, leaving the rest of the city exposed to space.

With the protective shields down and an asteroid belt fast approaching, Lt. Col. Sheppard (Joe Flanigan) leads a group of Atlantis personnel on a desperate jumper mission to clear a path for the city. Meanwhile Dr. Keller’s (Jewel Staite) attempts to resuscitate a comatose Elizabeth Weir (Torri Higginson) reveal that her patient has severe brain swelling and will require radical surgery.

McKay runs the calculations and realizes there’s an even bigger problem: in just 28 hours, the city’s shields will fail completely and all of Atlantis’ inhabitants will succumb the vacuum of space.

LIFELINE

Original air date: October 5, 2007
Lt. Col. Sheppard (Joe Flanigan) leads his team on a daring raid on the Replicator home world in a bid to secure a ZPM that will save Atlantis. The key to their operation is none other than Dr. Elizabeth Weir (Torri Higginson).

Directed by Weir and McKay (David Hewlett) from the jumper, Sheppard and Ronon (Jason Momoa) head deep into the Replicator city to acquire the sought after prize. But a surprising revelation concerning a long-dormant Replicator sub-routine changes the plan, forcing Sheppard and company to forego their quick escape.

When the Replicators become aware of the incursion, Sheppard’s team must keep them at bay or else abandon the mission and their hope of saving Atlantis. Meanwhile Colonel Carter (Amanda Tapping), aboard the Apollo, searches in vain for the missing city.

REUNION

Original air date: October 12, 2007
On an off-world village Ronon (Jason Momoa) and Teyla (Rachel Luttrell) discover a group of warriors from Ronon’s homeworld, Sateda. These Satedans, led by Tyre (Mark Dacascos), have a plan to infiltrate a Wraith weapons facility but need the Atlanteans help to do it.

Meanwhile, Col. Samantha Carter (Amanda Tapping) arrives on Atlantis as the new leader, and her first task is to execute new security protocols that leave Ronon feeling alienated and considering leaving Atlantis for good.

Once inside the Wraith weapons facility, the two teams split up, and Sheppard (Joe Flanigan) and his team come under fire from the Wraith. Ronon escapes but Sheppard and company are captured. The Wraith force McKay (David Hewlett) to make changes to the Replicator base code using an actual Replicator the Wraith have imprisoned in the facility.

Ronon and Carter mount a rescue operation, and, in the end, Ronon learns the truth about his old friends’ new loyalties.

DOPPELGANGER

Original air date: October 19, 2007
While Lt. Col. Sheppard (Joe Flanigan) and the team are out exploring a jungle planet, they discover a glowing crystalline growth. Compelled to touch the strange crystal, Sheppard becomes host to an alien entity. Once on Atlantis, the entity begins to move from person to person through the power of touch.

Teyla (Rachel Luttrell) is the first to experience a nightmare involving Sheppard. The chain reaction continues when she infects Dr. Keller (Jewel Staite), who succumbs to a different but equally terrifying dream. When Lorne (Kavan Smith) appears to have a psychotic breakdown, the team urgently attempts to trace the problem to its source.

When Rodney McKay (David Hewlett) becomes the latest host, the team links Sheppard to McKay’s brain, where Sheppard ultimately faces off against the malevolent entity that has assumed his form.

TRAVELERS

Original air date: October 26, 2007
Ambushed and imprisoned aboard a rogue human-run ship, Lt. Col. Sheppard (Joe Flanigan) is threatened with death by its attractive female commander, Larrin (Jill Wagner), unless he helps her reactivate a dormant Lantean spaceship. A nomadic group of travelers live on this rundown vessel, part of a greater armada, and their need for new ships has become critical.

As soon as Sheppard steps aboard, he discovers that the Lantean ship, abandoned after an attack by the Wraith, is now emitting deadly radiation. Unbeknownst to Larrin, Sheppard manages to send out a sub-space distress signal – but the signal attracts a Wraith cruiser. As the team searches for him, Sheppard’s resourcefulness is put to the test as he tries to stay alive, with or without Larrin’s help.

TABULA RASA

Original air date: November 2, 2007
Plant samples brought back from a new planet introduce an amnesia-inducing virus that strikes everyone in the city except Teyla (Rachel Luttrell) and Ronon (Jason Momoa), who appear to be immune. Carter (Amanda Tapping) orders the Gate’s control crystal removed to stop the disease from spreading to other planets while Major Lorne (Kavan Smith) and his soldiers are given orders to control the Atlantis population with stun guns.

The team discovers that a cure might be available among the plants on the mainland, so Ronon and Sheppard (Joe Flanigan), whose memory is also fading, set off to obtain it. Meanwhile, McKay (David Hewlett) works on a widespread distribution method but is unable to complete it before he too succumbs to the virus.

When McKay wakes up, he is strapped to his desk in front of his console, with no idea who he is or what is going on. Following instructions from a video he recorded earlier, McKay frees himself and sets out to find Teyla (Rachel Luttrell), the key to unlocking this mystery.

MISSING

Original air date: November 9, 2007
Teyla (Rachel Luttrell) is shocked to find the Athosian settlement on New Athos completely deserted when she and Dr. Keller (Jewel Staite) arrive for a visit. Upon encountering the menacing Bola Kai, a fierce warrior tribe, the two women flee for their lives into the surrounding forest.

Virtually weaponless and slowed by Keller, who has injured her ankle, the pair must avoid capture by the Bola Kai until their failure to return alerts Atlantis to send a search party.

Keller and Teyla find a bound and wounded man named Nabel (Johann Hels), who claims that Teyla's people were culled by the Wraith. Ultimately, the three are captured, and the Bola Kai’s tribe leader Omal (Danny Trejo) threatens to kill them unless they betray the location of Atlantis.

THE SEER

Original air date: November 16, 2007
With still no trace of the Athosians, Teyla (RACHEL LUTTRELL) requests an off-world visit to meet with a seer, Davos (MARTIN JARVIS), who may be able to help her find her people.

After convincing even McKay (DAVID HEWLETT), the most skeptical of the team, of his psychic abilities, an ailing Davos travels back to Atlantis to receive medical treatment. While there, he has visions of tragic and devastating consequences for Atlantis.

Meanwhile, the Wraith bring a startling proposal to Lt. Col. Sheppard (JOE FLANIGAN) along with information that the Replicators are finding new ways to destroy human civilizations throughout the galaxy with devastating results. The only way to stall their attacks may be to collaborate with the Wraith in a dangerous partnership.

Adding to the stress on Atlantis is the arrival of Agent Woolsey (ROBERT PICARDO) who has been assigned to observe and review Col. Carter (AMANDA TAPPING) in her newly appointed position as leader of the city.

MILLER'S CROSSING

Original air date: November 30, 2007
After working for countless hours on the Replicator coding, Dr. McKay (DAVID HEWLETT) reluctantly admits that he needs help with the program. And the only available person who can match – or exceed – his knowledge is his sister Jeanie (KATE HEWLETT).

After working on the calculations from Earth, Jeanie sends her results back to Atlantis and heads to bed. But the calm is broken when her bedroom is stormed by four men wielding MP-5’s, who tie up her husband and drag Jeanie into the night.

When news reaches Atlantis that his sister is missing, McKay travels to Earth racked by guilt for involving his sister. He is determined to find her and uncover who is behind the kidnapping.

But when McKay also goes missing, it’s up to Lt. Col. Sheppard (JOE FLANIGAN) and Ronon (JASON MOMOA) to figure out who has stolen the Replicator information…and the only two people who have the knowledge to understand it.

THIS MORTAL COIL

Original air date: December 7, 2007
As Dr. Rodney McKay (DAVID HEWLETT) struggles to figure out why the stargate has been inoperable for over a week, a mysterious probe plunges into the city. A subsequent decryption sweep of the probe offers McKay a shocking glimpse of nanite code before his diagnostic program crashes and all the data is lost.

Meanwhile, Lt. Col. Sheppard (JOE FLANIGAN), Teyla (RACHEL LUTTRELL) and Ronan (JASON MOMOA) have noticed that the some of the crew are behaving oddly. The mystery deepens still further when a former member of the expedition is discovered lying unconscious in a hidden room. Convinced that the replicators have finally found their location, the team grapples with these implications, unaware that their problems may very well be insurmountable.