First Strike

"First Strike" is the Stargate Atlantis' season 3 finale.

Summary
While walking through the halls of Atlantis, Dr. Weir is approached by her new acting head of medicine, Dr. Jennifer Keller. Dr. Keller is daunted by the task of managing the entire medical staff for the Atlantis Expedition in the wake of Dr. Beckett's death, and asks Weir to replace her as soon as possible. Weir says that's up to the IOA, but for right now, she tells Keller that dealing with the pressure will get easier over time; she should get used to her new position.

As Weir enters the control room, Dr. McKay approaches her and complains about having to fill out personnel evaluation reports for the people under his command. When she tries to convince him that it is necessary, Col. Sheppard enters the room, turning in his already completed reports to Weir. She is annoyed when she sees that he has ranked everyone with "excellent" and "above average". He retorts that they did perform excellently and above average, and a good leader shouldn't lie. Before Dr. Weir has a chance to respond, they are notified that Earth's newest Daedalus-class battlecruiser, the Apollo, has just dropped out of hyperspace. The commander, Colonel Abe Ellis beams down to the city and meets with Dr. Weir and her staff. He has come to inform them that the Daedalus, which has been conducting routine reconnaissance of the Asuran homeworld, has detected evidence that the Asurans are building a fleet of warships with the possible intentions of attacking Atlantis or, even worse, Earth. Ellis informs Weir and her senior staff that he will be conducting a preemptive strike against the Asurans to see that they never have an opportunity to launch their ships.

After viewing images taken by the Daedalus evidencing the construction of the ships, the IOA authorized this first strike. They sent the Apollo to Atlantis with the Horizon weapons platform on board. Horizon is a module containing six Mark IX "Gatebuster" nukes and four decoys that can be deployed from orbit. While Dr. McKay argues that since the Asurans are actually Replicators, if just one nanite survives, they will be able to reproduce their society, and Horizon doesn't have the power to destroy them all. Col. Ellis explains that their target is only the new Asuran ships; they are constructed of conventional alloys, so the Mark IX's will be enough to completely eliminate them. Once the scientists at Area 51 complete their latest project, the Planet Wide Anti-Replicator Weapon, or P.W.A.R.W., Ellis and the Apollo will return to the planet to destroy the Asurans for good. For now, though, this will have to do.

McKay and Zelenka beam up to the ship to inspect the Horizon and prepare it for launch. Meanwhile, Weir expresses doubt about the whole idea; the Asurans haven't recently made any aggressive moves against Atlantis. Attacking them now would invite a counterattack upon the city that could have disastrous effects. Col. Ellis proceeds anyway, despite her warnings. Upon arriving in orbit of Asuras, Ellis deploys the Horizon, which successfully delivers the nukes through the atmosphere to their targets. The mission is a success, and the Asuran ships are obliterated.

Later, an object is detected exiting hyperspace and entering orbit of Lantea. It's not a Wraith ship, but it doesn't have a recognizable transponder signal either. Apollo moves in range to investigate, and finds that it is a small satellite with a stargate inside it. As the ship moves in closer, the stargate activates, and shortly thereafter, the satellite maneuvers so that the wormhole's event horizon faces the Apollo and fires a sustained energy beam at the ship. The ship's energy shields are quickly drained. Before it is seriously damaged, though, the satellite rotates, moving the beam down to the planet, sweeping toward Atlantis. The city's shield is raised just in time. The beam is sustained and fires continually at the city.

Dr. McKay briefs Atlantis' senior staff and Col. Ellis about the attack on the city. The satellite is protected by a shield powered by the beam, and the beam itself is powered by a large number of ZPM's; clearly, this is the work of the Asurans. With this near-infinite power source, the Asurans will be able to maintain the wormhole and the energy beam indefinitely. Unfortunately, the humans can't maintain the city's shield anywhere close to indefinitely; their sole ZPM will be depleted in 29 hours. Then, the shield will fail and the city will be destroyed.

Weir opens communications to Asuras through the satellite gate. She is surprised to see Oberoth again. He tells her that each Asuran exists within a collective consciousness and can be replicated multiple times. Her efforts at diplomacy fail, and when the Asurans try to send a computer virus into the Atlantis mainframe, she terminates their communication link.

In light of recent events, Sheppard goes to Col. Ellis and confronts him about the negative repercussions of their mission. Ellis responds that he is just speaking on Weir's behalf. Ellis goes on to say that while John has blemishes on his record, he should be the one leading Atlantis. Meanwhile, Teyla meets with Weir, and the expedition leader reveals that she is deeply troubled by the threat Colonel Ellis poses to her authority. She rants to Teyla that the IOA may back her regularly, but when Atlantis faces dangerous circumstances, Weir is nothing more than their scapegoat. Worse than the IOA, though, is the military; sometimes it seems like General O'Neill is the only one in the military who supports her command of Atlantis. She muses to Teyla that if they survive this, she may have to step down. Teyla tries to be reassuring but is clearly troubled by Weir's words.

Later, while reviewing possible options, Dr. McKay and Dr. Zelenka reach a brilliant solution to their problem; submerge Atlantis to the ocean floor. The Ancients did it once before, ten thousand years ago. Previously, the team couldn't submerge the city because several necessary systems were offline. However, those systems were restored when the Ancients returned to Atlantis. Once underwater, the beam's intensity will be attenuated. Its weakened strength will buy Atlantis more shield time. This is by no means a permanent solution to the problem, but it will buy them several hours to come up with one. Weir gives the go-ahead, and McKay makes the necessary preparations. The city sinks and lands on the Lantean ocean floor. Sadly, McKay and Zelenka find that the three hours of work necessary to sink the city have saved the ZPM only nine hours worth of shield power. Another solution must be found very quickly.

Col. Sheppard and Dr. McKay realize that they will always be in range of the satellite on Lantea, and their only hope of escaping the beam is to leave the planet and escape to space using the city's stardrive. The problem is, there's not enough energy in the ZPM to lift the city out of the atmosphere while shielding it from the beam at the same time. In another shared stroke of genius, McKay and Sheppard suggest to Col. Ellis that he dispatch Major Lorne to lead a squadron of F-302's toward Lantea's moon. The squadron will tether themselves to one of several asteroids orbiting the moon, and maneuver it into the beam. If all goes according to plan, it will disrupt the beam for several crucial minutes during which the shield's stresses will be alleviated. Even then, one ZPM wouldn't be enough to operate the stardrive, but supplementing it with power from the Ancient geothermal drilling platform, it should be enough to get into the atmosphere.

The plan is approved. All nonessential personnel are evacuated to the Apollo, and the F-302's make their way to the selected asteroid. Col. Ellis tells Weir that while he may not like her, he does respect her, and he apologizes for attempting to overstep his authority. Weir appreciates the gesture; Ellis returns to his ship, the F-302's move the asteroid into the beam's path, the geothermal platform works perfectly, and the city begins its ascent.

Unfortunately, there is still not enough energy to power the stardrive. The city makes it to the ocean surface but can't get far up into the atmosphere. Weir suggests dropping the shield; McKay argues they won't be able to contain an atmosphere without the shield. However, Sheppard, flying the ship from the control chair, agrees that they should deactivate it; they won't need artificial atmosphere until about 18,000 feet. Once the shield is down, Atlantis moves off into the atmosphere. After reaching 18,000 ft, Sheppard engages the shield. However, at that moment, the Asuran beam destroys the asteroid blocking it, and races down toward Atlantis. It strikes the city before the shield closes, grazing the control tower. Several windows blow out, and the blast from the beam injures many people, including Ronon and Weir. The control room is severely damaged. Despite the damage, Sheppard gets the city out of harm's way, exiting the atmosphere and going into hyperspace. He then receives word from McKay that the control tower has been hit.

Minutes later, Sheppard arrives at the control room. There is heavy damage and many injuries. Dr. Keller loads Weir onto a stretcher. She appears to be severely injured. When Sheppard tells her she'll be okay, Keller says she isn't so sure about it. Sheppard goes into the control room, and finds Ronon there, severely injured, having to order him to get medical attention. Immediately after, Atlantis abruptly drops out of hyperspace. McKay realizes that they have not arrived at the planet designated to be Atlantis' new home, M12-578. Rather, they are truly in the middle of nowhere; there are no nearby stars, planets, or other navigational markers. Atlantis is lost in space, and neither McKay nor Zelenka know what happened to the hyperdrive. Worse, the ZPM has 24 hours of charge left. When it has expired, they will lose atmosphere and die.

Notable Quotes
Rodney McKay: Look, asking me to do performance evaluations is ridiculous. I am the first person to admit — I don't know who these people are, nor do I care to. Look, if you'd like, I could take you down the hall to the labs and just point at the people who annoy me more than the rest, but that's about as useful as I get.

Rodney McKay: We were throwing some ideas back and forth &mdash; well, (pointing to Zelenka) he was throwing them forth and I was throwing them back &mdash; and while he was droning on about some idea that might have worked, it suddenly occurred to me: This city has encountered problems like this before. So, I &mdash; Abraham Ellis: We don't need the history of your idea, Doctor. I'll let that be a surprise when I read your autobiography.

Ronon Dex: I need to learn some science. John Sheppard: What for? Ronon: I'm not all that useful in situations like these. If you get into a fight, or need to break out of somewhere...you know, kill someone...I'm your man. But a laser attacking the city shield...I don't know where to chip in. Sheppard: Well, that's why we're a team. Like...the Fantastic Four. (Teyla looks confused.) It's a comic book. Where superheroes fight crime and stuff. See, I'd be Mr. Fantastic, Ronon would be The Thing, McKay would be the Human Torch, and you'd be the Invisible Woman. Teyla Emmagan: I am not invisible. Sheppard: No. No, and McKay's not a human torch. Teyla: Well, how come you get to be Mr. Fantastic? Sheppard: Because he was the leader, and I'm the...I'm just saying, they were a cool team, and they used their strengths to...you know.... (Ronon and Teyla stare at him.) Sheppard: I'm gonna go check on McKay.

Rodney McKay: You sure you can do this? John Sheppard: Fly the city? McKay: What else could I possibly be talking about? Sheppard: I flew a V-22 Osprey once. McKay: Was it as big as a city? Sheppard: You had to use your hands and feet for that one; this one you just have to sit down and think, "fly."