In 2001, Devil's Due Publishing (a spinoff of ImageComics) acquired the comic rights to GIJoe and launched a new series, set in the same continuity as [[ComicBook/GIJoeARealAmericanHeroMarvel the Marvel Comic]]. They published an ongoing title - once again called G.I. Joe: A Real American Hero, but later renamed G.I. Joe: America's Elite - and several miniseries exploring the backstories of the characters. Devil's Due lost the comic rights to IDWPublishing in 2008, and their final issue was printed that July. All of these books have since been declared CanonDiscontinuity and are now known as the "Disavowed" comics.

* AdultFear: The issue about Hannibal and the other young Serpentor clones. The reactions of the clones' adoptive parents are really understandable as their children are lost.
* AscendedExtra: Dr Knox was just an one-shot Cobra scientist from one of the latest Marvel issues. After Dr Mindbender is KilledOffForReal, she becomes Cobra's main scientist.
* CanonDiscontinuity: As a result of IDW Publishing renewing the storyline of the original Marvel Comics series from where the final issue left off, the Devil's Due run is now considered an alternate universe known as the "Disavowed" continuity.
* DyingMomentOfAwesome: Mainframe blows himself up, along with a number of Coil agents.
-->'''Mainframe:''' Mission Accomplished.
* EnemyCivilWar: Cobra vs the Coil. While the Joes also face the Coil, they refuse Destro's offer for an alliance against the Coil.
* EvilChancellor: White House Chief of Staff Garrett Freedlowe - actually Cobra Commander in disguise - tries to have the President replace G.I. Joe with the Phoenix Guard, a unit secretly made up of Cobra agents.
* LegacyCharacter: Both Croc Master and Sneak Peek get successors. They share the fate of their predecessors, and Croc Master II is even killed in his debut issue.
* {{Nanomachines}}: The first Devil's Due saga had Destro [[spoiler: or rather his son Alexander]] using Nanomites to take control of Cobra.
* NoDialogueEpisode: The Devil's Due series also had one, as a homage to the Marvel series. Just like the Marvel issue, it was issue #21.
* SupremeChef: Roadblock is still this, and he even develops the "Marvin Hinton Grill" and when overeager Dreadnoks try to destroy the studio, Roadblock fights them on stage, which increases his popularity (and grill sales).
* ThickerThanWater: When Zartan finds that the Coil agent he just hurt is his brother Zandar, he takes him and withdraws all Dreadnoks from the battlefield.