Kes begins to go through a transformation to a higher plane of existence. However, this transformation puts Voyager in danger. Kes decides she must leave in order to preserve the crew. But, once transformed, Kes imparts a major gift on Voyager and its crew.
Meanwhile, Seven of Nine fights Janeway's attempt to adjust her back into humanity.
While chasing a renegade Maquis ship in the Badlands, the USS Voyager and the Maquis ship they are chasing are pulled into a vortex, which sends them instantly to the Delta Quadrant. However, after the destruction of the device that transported them to the Delta Quadrant, the crew of Voyager and the crew of the Maquis ship must join together to fight their way back to their home in the Alpha quadrant, which is many years away. They will meet many foes and many obstacles along the way, but they will also bond as a crew, between those of the Maquis and those of Starfleet.