- A devastating revelation about Jack alters the course of Picard's life - and uncovers a truth that threatens every soul in the Federation. Picard and his crew race to save the galaxy from annihilation - at a gut-wrenching cost.
- Troi is with Jack inside his mind. She travels with Jack through the Red Door. The pathway outside the door is covered with vines. Each vine is a branch, but underneath the soil, the vines are connected to each other. Troi is horrified by what she sees and jumps out and cut the mind bridge before Jack can step through the Red door. Troi discovers Jack is connected to the Borg, the source of all the voices he hears.
Beverly realizes that Picard's supposed Irumodic Syndrome was in fact undetected organic Borg technology implanted in him when he became Locutus, and that this technology seeded itself in Jack. Somehow, Jack is the Changeling's weapon against humanity.
Picard reveals the truth to Jack. Jack starts to question his entire life and existence. Picard says that as a Borg he came close to killing everyone he knew and loved. Picard wants to transfer Jack to the research academy on Vulcan for his safety. Jack recognizes the Vulcan academy as an institution to mind meld the Borg out of him. Picard imprisons Jack. Jack controls the minds of his captors and escapes. Horrified, Jack flees the Titan in a shuttle despite Picard's attempts to stop him. Guided by his link to the Collective, Jack finds a Borg Cube and boards it, intending to kill the Borg Queen (Alice Krige). However, upon confronting the Queen, Jack falls under her influence and allows himself to be assimilated. Jack is named Vox, by the Borg Queen.
Geordi figures out that Borg altered Picard's DNA in captivity. Hence, the Changeling's stole his body from the Daystrom Station, to access the altered DNA. The altered DNA made Picard a receiver for the Borg. Jack, it appears is a transmitter. If any life form has Picard's receiver DNA, they can be controlled by Jack, remotely, and without assimilation.
Meanwhile, as the Titan races to the Starfleet anniversary celebrations above Earth, Data, Geordi and Beverly discover that the rogue Changelings stole Picard's corpse in order to harvest the parietal lobe and copy his Borg-altered DNA, which was then planted in the transporter systems of all Starfleet ships. Thus any person who went through the transporters got a copy of the Borg altered DNA into their body. Thus, infecting any Starfleet personnel whose frontal Cortexes are still developing (until age 25 in humans). The Borg genetic material doesn't propagate beyond a certain point of the species developmental cycle. The Borg had been assimilating the entire fleet via the Changlings, and nobody even suspected a thing.
Picard informs Fleet Admiral Shelby (Elizabeth Dennehy) of the developments but is too late as the Borg use Jack to trigger the assimilation of Starfleet's youngest members, including Geordi's daughters.
The assimilated Starfleet youth assassinate Shelby and seize control of the entire fleet, including the Titan. They then start to eliminate everyone who is not assimilated. The ships of the new Starfleet are all linked to each other, so they start moving into battle formation and all ships which are not assimilated are eliminated as well. Shaw sacrifices himself to buy Picard and the others time to escape the ship via a shuttle from the maintenance deck which was not guarded. The shuttles are not connected to the main systems and are autonomous.
Before dying, Shaw hands over command to Seven, who remains on board the Titan with Raffi. Picard and his former crew head to the Starfleet Museum where Geordi reveals that he secretly rebuilt the Enterprise-D after its destruction; it is now the only operable Starfleet vessel not under Borg control.
The Enterprise's old crew press her back into service to save the Federation.
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