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The crew of the USS Voyager is unsettled as a secluded and conflicted Captain Janeway reflects on the decision she's made along the mission and the consequences those judgements have had for them all. But soon the team of the USS Voyager encounters two never before seen alien species - a nocturnal alien and its foe, the Malon - and knows that one will not survive without their intervention. Knowing that coming to their aid makes a detour through dark, desolate space necessary, the captain alone must once again determine her crew's fate.
There's a sudden emergence of a dangerous new lifeform aboard the USS Voyager - a Superborg - after The Doctor's 29th century mobile emitter technology mysteriously fuses with Seven of Nine's Borg nanoprobes.
Torres' crewmates are alarmed when she repeatedly engages in reckless activity including orbital skydiving. Meanwhile, after the USS Voyager directs its probe into a hazardous atmosphere, protecting it from a Malon freighter, Lt. Paris launches a newly constructed, all environment shuttlecraft, to retrieve it.
The USS Voyager discovers that Species 8472 has created a habitat simulation of Starfleet's San Fransisco yards, and are training their own to pose as humans to eventually invade Earth.
As the U.S.S. Voyager searches for the crash-landed Delta Flyer and its crew, Lt. Paris, Tuvok, Ensign Samantha Wildman and Neelix help the littlest crewmember, Naomi Wildman, cope without her mother. Together, they are kept occupied by the odd character's in Naomi's storybook holonovel, the classic Adventures of Flotter, but Neelix soon decides that a starship is no place for a child.
Fifteen years after the Starship U.S.S. Voyager crashes into a desolate ice planet, Commander Chakotay and former Ensign Harry Kim, sole survivors of the tragedy, steal the Delta Flyer from a Federation shipyard and return to the U.S.S. Voyager's frozen hull. Aided by Chakotay's striking love interest, Lieutenant Tessa Omond, Chakotay and Kim are hotly pursued fugitives with hope that somewhere embedded beneath the ice, they'll retrieve the only tools they believe can change the fate of their long-dead fellow crew members.
Mysteriously, the U.S.S. Voyager comes upon a floating Borg Vinculum - a device that interconnects Drone's minds aboard a Borg vessel - which swiftly causes Seven of Nine to manifest personalities other than her own including that of a Klingon warrior, a Ferengi, and a six-year-old human girl. Janeway is crushed to learn that before Tuvok, The Doctor and she can intervene, Seven may be completely lost.
After Torres is stricken by a bizarre, injured alien that latches itself onto her body, The Doctor creates another holographic physician, a Cardassian exobiologist named Dr. Crell Moset, to save her life. But Torres refuses treatment when it's learned that the physician engaged in unethical wartime medical practices.
The oft-mentioned but never-before-seen bright, beautiful and fun-loving twin Starfleet Officers, Jenny and Megan Delaney, are finally featured both in their official capacities aboard ship and on the Holodeck as Lieutenant Tom Paris lives out his superhero fantasy in ``The Adventures of Captain Proton''. Jenny's more self-confident and outgoing than the somewhat timid Megan.
As the U.S.S. Voyager rescues two families of telepathic alien refugees from the Devore Imperium, they are intercepted by a Devore squadron and boarded by inspectors searching for the defectors. Soon Kashyk, the lead Devore officer pleads with Janeway to grant him asylum.
While employing his holo-imaging device, The Doctor discovers that his short term memory buffer has been tampered with and fevently initiates an investigation to find the person or thing responsible for the corruption.
Armed conflict erupts when aliens from the Fifth Dimension mistake Lieutenant Paris' Captain Proton holographic novel for reality. The aliens consider the novel's main character, the evil Dr. Chaotica, to be a threat so they knock the U.S.S. Voyager's controls off-line. Janeway is forced to assume the role of the story's powerful Arachnia, Queen of the Spider People, and infiltrate Chaotica's Fortress of Doom. Meanwhile, The Doctor takes on the role of the novel's President of Earth to help the aliens defeat Chaotica.
A shuttle carrying Tuvok, Paris and The Doctor disappears into a collapsing sinkhole and crash lands on a deserted wasteland. While the U.S.S. Voyager tries to rescue them from this risky area of space, the away team befriends Noss, an exotic alien woman who's also trapped on the planet. Soon, she falls in love with Tuvok and although it's illogical for a Vulcan, he finds himself attracted to her too.
Finally, after five long years, an exhilarated crew of the U.S.S. Voyager finds a wormhole that will bring them back to the Alpha Quadrant. As the happy crew prepares to return to Earth, a skeptical Seven of Nine violates captain's orders and enlists The Doctor, little Naomi Wildman and an alien pilot, Qatai, to help her stop the ship from entering the wormhole.
The story follows the epic struggle between Captain Janeway and the Borg Queen for control of Seven of Nine. The story begins with a 24th century heist, as the crew of Voyager attempts to infiltrate a Borg vessel to steal their advanced technology. The plan goes awry and Seven of Nine is reassimilated by the Borg. After defeating a Borg vessel, Janeway launches an ambitious plan to steal a piece of Borg technology that could get the U.S.S. Voyager home. When the Borg detect her plan, they swiftly access Seven of Nine's neural transceiver and make her an "offer" she can't refuse - rejoin the Borg collective or the U.S.S. Voyager and it's crew will be assimilated. Janeway must confront the Borg in their own vessel in order to rescue Seven, risking a possibly devastating confrontation with the Borg Queen. \npar The episode will also take us back 20 years to meet Seven of Nine's family and see how they were assimilated.
Without Starfleet medical clearance and in violation of interspecies protocol, Ensign Harry Kim has a passionate love affair with an exotic alien explorer, Derran Tal of the Varro species. But the escapade puts both the Voyager crew and the Varro species in Jeopardy when Kim and Tal become biochemically interdependent.
Lieutenants Tom Paris and B'Elanna Torres tie the knot but their holographic honeymoon is cut short by a phenomenon that breaks down the U.S.S. Voyager's infrastructure and disintegrates not only the ship but the crew.
While the ship is caught in Chaotic Space, a zone where the laws of physics are in a state of flux, Commander Chakotay believes he's a 24th century boxer, The Maquis Mauler. Before long, he's going head to head with the Delta Quadrant's champion, Kid Chaos.
In the midst of a clash with the Hazari bounty hunters, Janeway is offered assistance from a "think tank", a small yet exotic alien ship containing disparate life forms, each able to communicate telepathically. Their spokesperson, Kurros, offers to help solve the dilemma with the Hazari, only in exchange for Seven of Nine as payment. When Seven declines their ``offer'', the think tank focuses on taking her by force.
The U.S.S. Voyager rescues two crewmen from an abandoned, out of control Malon freighter that's about to unleash a theta radiation blast into the sector. Soon, Lieutenant Torres leads an away team to board the freighter and contain the poison - despite warnings from its crewman, Fesek and Pelk, about the Angel of Decay that wreaks havoc aboard the cargoship.
To broaden her knowledge of human behavior, Seven of Nine gets lessons from The Doctor on socializing and dating rituals. When they enter a holodeck simulation in Sandrine's nightclub, Seven not only learns the art of small talk, but how to slow dance and sing a song. Eventually, she makes a date with Lieutenant Lansing but it's The Doctor who falls in love with Seven. Meanwhile, during a tour to help facilitate a trade agreement with the monastic Kadi colony, Neelix unwittingly provides their ambassador, Tomin, with forbidden food and drink.
Captain Janeway reminisces about her ancestor Shannon O'Donnel, the first of her family's long line of explorers and one who helped build the Millennium Gate on Earth. As Janeway relates the story, the episode revisits the town of Portage Creek on New Year's Eve 1999, as Shannon O'Donnel (played by Kate Mulgrew) nears the deadline to convince the town's last holdout, local bookstore owner Henry Janeway, to approve the building of massive, half a mile high Milliennium Gate, a model for the first colony on Mars.
In an episode that revisits Janeway's first day aboard the U.S.S. Voyager and then fast forwards 500 years beyond it when her ship is destroyed, Captain Braxton of the 29th century Federation Timeship Relativity contacts Seven of Nine to go back in time to solve the mystery of who planted the ``temporal disrupter'' which ultimately destroyed the U.S.S. Voyager. But when the new starship captain, Janeway, catches the mysterious Seven aboard the brand new U.S.S. Voyager, she detains her, an interference that could contaminate the time-line.
The Doctor's program is tampered with again to turn him back into the 'darkling' and only Harry can save him!
After the U.S.S. Voyager receives a distress signal from an alien missile, Ensign Kim, Torres and The Doctor determine that it's a complex, damaged weapon with artificial intelligence and sentient consciousness. But when they beam this mysterious device aboard, it interlinks with The Doctor's program and through him, insists the U.S.S. Voyager enable it to fulfill its mission of mass destruction.
The U.S.S. Voyager finds another Federation starship lost in the Delta Quadrant, the science vessel U.S.S. Equinox, and helps it stave off an attack by creatures from another spatial realm. Captain Janeway now has a kindred spirit in its commander, Captain John Ransom, and helps him salvage his war-torn vessel so they can journey home together. But when The Doctor retrieves data from the U.S.S. Equinox research lab, Janeway learns the hard truth that Captain Ransom has seriously violated the Starfleet oath by commiting mass murder in the Delta Quadrant. When she strips him of his command and confines him to quarters, he and his crew manage to escape with the U.S.S. Voyager's advanced technology - and The Doctor and Seven of Nine as hostages aboard their ship.
The Equinox is on the run from the aliens who are appearing on the ship through fissures. The USS Equinox has also encountered the Kazon. Max Burke, the First Officer, used to be B'Elanna's boyfriend at the academy and gave her the nickname BLT - Tom becomes jealous of Burke.
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