قام فريق من العلماء والجنود من قاعدة إيكاروس بكشف أسرار الرمز التاسع من البوابة. لأنهم مضطرون لاخلاء القاعدة عندما تتعرض لهجوم من فضائيين غير معروفين ، فينتهي بهم المطاف على القدر، وهي سفينة من سفن القدماء ، و قطعت بهم عدة مليارات سنة ضوئية من الأرض.
راش يحاول معرفة لماذا طاقة السفينة الاحطياطية ضعيفة جدا. الكولونيل افيريت يونغ يأمر الجميع بتخفيض استعمالهم للطاقة. ولاحقا يتداعى كل شيئ ماعدا نظام دعم الحياة. ولكن القدر تصل الى نجم مع ثلاثة كواكب مما أعطى الطاقم فرصة جديدة لكي يعيشوا يوما آخرا.
On a seemingly unalterable collision course with a nearby star, and despite finding three suitable planets, Young tells everyone that only seventeen people can go in the shuttle and that a lottery will determine their fate.
Much of Destiny's water reserves mysteriously disappears. The ship then reaches an ice planet, where the crew attempt a harvest in order to replenish the supply. However, the atmosphere and the ice around the area of the Stargate is poisonous, and they'd have to expand their search with limited air in the environmental suits. Meanwhile, Tamara Johansen works to catch an intruder believed responsible for the lost water.
The consciousnesses of some of the crew of the Destiny arrive back on Earth by means of an Intergalactic communication device. Colonel Young, Eli, and Chloe's consciousnesses are on Earth, and while Eli and Chloe visit their families, Young meets with Williams and O’Neill about a potentially dangerous plan to bring the crew home. Back on the ship, Telford takes over Young's command in order to ensure the plan is enacted.
An away team finds a kino beside a Stargate on a jungle world, which contains video footage of the team that was shot prior to their arrival. Then, an illness cripples the team, forcing them to quarantine themselves on the planet.
While searching the ship, the crew finds an Ancient device, similar to, but predating the Repository of knowledge from the Milky Way that may hold the promise of getting them home, and using the communication stones, Scott and Wray visit loved ones back on Earth. Scott is stunned to find out that he has a son, and Young gets extremely angry at Telford for seeing his wife. Rush also manages to gain access to the subspace link to the seeding ships.
Colonel Young cedes command to Wray after Sergeant Spencer is found dead from a gunshot wound and the gun is recovered from his quarters. Meanwhile, a planet harbors a secret that threatens the Destiny, and Dr. Nicholas Rush gains access to the Ancient interface.
Colonel Young uses the Long-range communication device, but it malfuntions, and he finds himself aboard an alien ship, thereby provoking the aliens into attacking Destiny. During the attack, which proves a diversion, the aliens kidnap Chloe, and Young decides to use the stones again, during which he finds and frees Rush, who is aboard the alien ship.
Rush and Chloe suffer nightmares following their ordeal on the alien vessel, and Rush suspects that a tracking device may have been placed on the ship's hull. Later, a splinter group of the civilian crew on Destinyexecutes a coup with life-threatening consequences.
When an uncharted star interrupts Destiny's FTL drive, it is forced to make a slingshot around the star, the process of which takes a month. The only planet orbiting the star is surprisingly like Earth, with food, water, and breathable air, which makes some of the crew consider staying.
While Greer is trapped in a cave-in on a desolate planet and left for dead, Scott, Chloe and Eli try to reach Destiny via the Stargate network, and Rush tries to locate them before the ship leaves the galaxy for good.
As Destiny travels away from the galaxy, leaving Eli, Chloe and Scott behind, one of the ship's sixteen FTL-drives explodes. While the expedition uses the communication stones to call a brilliant mind from Earth to help repair the engines, two Blueberry alien motherships appear and begin to attack the ship. Facing an incursion, the ship and its crew make preparations to protect themselves and attempt to repair the drive. If they can't, the ship will not make it across the void.
When the crew suffers from vivid hallucinations that tap into their personal fears, Tamara Johansen isolates the affected from the rest and then tries to seek out the cause of the affliction as it spreads and becomes life-threatening.