The crew needs food. Zhaan needs to eat meat and starts spewing spores. Only Aeryn seems to have a tolerance for the spores. While she's on Moya with Zhaan, the others find a Budong to get some food.
Chiana buys a picture in a store, which is more than it seems. The picture changes and shows Chiana what will happen to her, when it shows she is on fire, the crew must discover the origins of the picture, and find an old enemy.
Chiana discovers a recording with Moya's original Pilot. After seeing the recording and realizing Aeryn was involved, Pilot orders Aeryn to leave Moya.
A visitor comes on Moya with a device that could cloak Moya. The crew welcomes him on board, but soon almost everyone is acting paranoid, and the crew starts attacking each other.
Scorpius attempts to extract the wormhole technology from Crichton's mind, while Aeryn mounts a rescue operation. Crais finds himself at Scorpius' mercy, and Moya gives birth.
Aeryn has been critically wounded. She needs some tissue samples to heal. The only source is the Secret base the Peacekeeper mentioned. Crichton and Chiana go to the base, to get the samples. They encounter an old friend, and a new enemy.
A peacekeeper ship is approaching Moya, so Crichton and Aeryn pose as peacekeeper officers on a secret mission while everyone else gets locked into cells to make the deception seem realistic.
Moya tries to starburst to prove to the crew that she still can. It goes slightly wrong though and she gets stuck in starburst and split into several different dimensions.
When Moya travels to an unstable wormhole that appears to lead to Earth, Crichton leaves on Farscape One in the hopes of returning home.
When a Starburst goes badly wrong, Moya collides with a Nebari ship. On board is Durka, Rygel's former torturer, who has been mind cleansed and now serves the Nebari.
Crichton is left behind in Farscape One when Moya suddenly starbursts as a result of her pregnancy.
A peacekeeper beacon goes off and Moya has to land on an alien planet to prevent its signal being intercepted and Moya being discovered.
The crew visits a planet full of happy workers. Soon D'Argo and Zhaan start working and refuse to return to the ship. Meanwhile Rygel's body fluids become explosive and Aeryn and Pilot must learn why before Rygel dies.
To save Moya from attack by a race of scavengers, Crichton and a female Peacekeeper Tech, left behind by Captain Crais, join forces.
Rygel is captured and held for ransom by some bounty hunters. Rygel "borrowed" a crystal from Moya, without the crystal Moya cannot maintain her orbit and will crash into the planet if it isn't returned shortly.
The crew rescues a scientist and his assistant from a disintegrating ship. Crichton starts seeing the future, which holds death for the crew and Moya. He tries to influence the course of events but cannot change the outcome until they all learn what their guests are truly hiding.
A locator beacon, automatically broadcasting its exact location to any Peacekeeper forces in the area, is discovered inextricably fused into Moya's neural nexus.
Astronaut John Crichton attempts to use the Earth's atmosphere to propel his module at high speeds but is hit by a radiation wave and is sucked through a wormhole into a distant part of the universe.
Determined not to let his child be born into a world at war, John Crichton puts himself at the center of the conflict.
The crew goes after Aeryn on a Scarran controlled station.