Stardate: 50912.4 Out of nowhere, a strange frightened individual appears on Voyager and begins asking why he has been abducted. As Voyager was not responsible for the stranger's presence onboard the ship, they start investigating what is going on. They find that one member of the crew, Kes, has mysteriously disappeared about the time Dammar, as the stranger is called, appeared.
Worse, more strangers from Dammar's planet Nyrian start appearing on the ship. This matched by an equal number of Voyager's crew begins to disappear from the ship. Soon, half of Voyager's crew is gone.
As Janeway and Chakotay discern what is really happening, it is too late, as they too disappear.
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.