The Borg Queen considers Unimatrix Zero a threat because she does not want her Borg to ever have traces of individuality, but Captain Janeway thinks it could give the Federation allies within the Collective.
The Doctor, Seven of Nine and Harry Kim are on a mission in the Delta Flyer to study preanimate biomatter from a comet. The ship jolts a few times and they realize they are under attack. The captain of the attacking vessel, Ranek, claims the Delta Flyer is transporting a "photonic insurgent" through Lokirrim space, which is forbidden.
Two Hirogen move through a jungle hunting prey. Suddenly phaser shots are fired at them from a small lake. Four armed Starfleet crewmen rise out of the water and continue firing, destroying their predators with vengeance.
Captain Janeway is caught by surprise when she is paid a visit by Q and his son, Q ("Q2"). She last saw the young Q as an infant four years ago, but he already looks and acts like an adolescent, and his father wants to leave him on Voyager to learn about humanity.
Neelix is hosting a party to celebrate First Contact Day, the anniversary of the Vulcans` arrival on Earth, when Chakotay interrupts with news that sensors have detected Talaxian lifesigns a few light-years away.
Captain Janeway and the Doctor run into a problem as they travel back from a medical symposium on the Delta Flyer. When Janeway returns to the U.S.S. Voyager, she tells Chakotay that they encountered a race called the R`Kaal who have outlawed conventional warp travel through their territory, and insist on punishing Voyager by dismantling the ship.
It is the 10th anniversary of the U.S.S. Voyager`s triumphant return to Earth after 23 years in the Delta Quadrant. Kathryn Janeway is an admiral, Harry Kim is a starship captain, Tom Paris is a full-time holonovelist, and the Doctor is married to a human woman and has named himself "Joe."
Admiral Janeway beams aboard Voyager and meets her younger self, and is moved to see a healthy Tuvok and Chakotay again. In Janeway`s Ready Room, the Admiral reveals to the Captain that Voyager did eventually make it back to Earth after another 16 years, and the ship became a museum on the grounds of the Presidio.