Set in 2023, the game follows Joanna Dark, an agent of the Carrington Institute, as she attempts to stop a conspiracy by rival corporation dataDyne that involve extraterrestrial life and technology.

Set in 2020, the game follows Joanna as a bounty hunter working with her father and a computer hacker before she joins the Carrington Institute in an effort to stop dataDyne from taking possession of an artifact which endows individuals with superhuman powers.

[6] The second comic, Hunting Season, is set one year after the events of the Nintendo 64 game and follows Joanna as she learns dataDyne's secret human cloning program to create replicants of world leaders.

[12] It is set six months after the events of the game and portrays Joanna as an ex-bounty hunter drawn into the Carrington Institute's battle with dataDyne through her own vendetta against the big corporations.

[15] It was released in six monthly issues from August 2006 to January 2007 and revolves around Joanna's attempts to unmask a mole in the Carrington Institute's Los Angeles office.

Trautmann also wrote a comic booklet included in the Limited Collector's Edition of Perfect Dark Zero, entitled Hong Kong Sunrise, which sets the scene for the game.

[16] It follows Joanna as she attempts to stop a clandestine group of hackers responsible for some major accidents that allowed dataDyne to take over involved corporations.

The name "Velvet Dark" references Joanna's alleged sister, who is the character players assume the role of in the game's co-operative mode.

[19] Although both Core and Vengeance would form an overarching story, each part would be a fully featured and stand-alone game with its own multiplayer mode.

It was cancelled in 2007 because Microsoft felt that Perfect Dark Zero did not sell well enough, leading them to prioritise other science fiction series like Halo and Gears of War.

[4] The remaster was developed by 4J Studios, a company that had previously handled the Xbox 360 ports of Rare's platform games Banjo-Kazooie and Banjo-Tooie.

[22] Later, in 2015, Microsoft Studios creative director Ken Lobb said that they had not abandoned the Perfect Dark series and that a new game would eventually be developed, although not necessarily as a first-person shooter.