From 2001 on, Austen wrote several issues of
War Machine. The mini-series was received well, but sales of the action-driven story were plagued by the fact that the series was published in the aftermath of the September 11, 2001 attacks. In 2003, Austen followed up with
War Machine 2.0. Using the creative liberties in the alternate universe in which the series is set, he wrote Rhodes' boss Tony Stark as more pacifist and business-minded than his mainstream counterpart, and Rhodes himself as the proactive protector.
In the early 2000s, Austen started working regularly for Marvel Comics, writing and illustrating
U.S. War Machine, illustrating
Elektra, and writing a number of series, including
Uncanny X-Men,
Captain America, and
The Avengers. His two-year run on
Uncanny X-Men was his most lengthy writing assignment to date.
In 2002 Austen took part in writing a Marvel book with Bruce Jones entitled,
The Call of Duty 911, series of short-lived Marvel Comics series featuring firefighters and emergency service workers dealing with paranormal phenomena in the Marvel Universe, conceived in the aftermath of the September 11 attacks as a way to convey the heroism of New York City firemen as real life superheroes. Austen wrote
Call of Duty: The Brotherhood #1—6, and
Call of Duty: The Wagon #1—4, and a short run on an ongoing series in 2002—2003, that lasted four issues.
From August 2003 to January 2004, Austen wrote six issues of
The Eternal for the Marvel MAX line. It was a reimagination of the classic
Eternals comic book by Jack Kirby and was lauded as "haunting yet humorous".
X-Men and Avengers work
In 2002, Austen took over
Uncanny X-Men beginning with #410-415, during which he introduced the character of Annie Ghazikhanian, who falls in love with comatose X-Man Havok.
Comics Bulletin gave Austen 3.5 out of 5 stars: while criticising a certain tendency for melodramatics, he was lauded for his "spot-on" characterizations of Northstar and Professor X. Austen's follow-up arc, "Dominant Species", ran from #416-420, in introduced a group of mutant werewolves who eat humans who do not accept mutant rights.
Austen continued in 2003 with three short two-part arcs named "Rules of Engagement", "Holy War" and "Sacred Vows" (
Uncanny X-Men #421—427). Comics Bulletin was appreciative of
Rules of Engagement while acknowledging that the Canadian superhero team Alpha Flight behaved strangely nationalistic. "Holy War" featured religious zealots Church of Humanity who crucify several junior X-Men and abduct demonic-looking X-Man Nightcrawler. They want to install him pope of the Catholic Church to discredit this religion. In "Sacred Vows", Austen established that X-Man Polaris is the daughter of archvillain Magneto. That drives her over the edge, makes her betray her fiancé Havok with a male stripper, while Havok betrays her with nurse Annie Ghazikhanian. Austen admitted misplotting Polaris. In addition, a stand-alone story featured the teenage X-Girls Jubilee and Husk visiting a grave: instead of mourning, they exchange sex fantasies. In the next story arc, "Draco". (
Uncanny X-Men #428—434), Nightcrawler is revealed to be the son of Azazel, a powerful demon, who is later revealed as Satan himself. Thefourthrail.com called the story pacing "unbelievably tedious" and pointed out that Austen's revelation lacked power, because Azazel was painted as Satan from literally the prologue of the story on. Austen himself admitted that he misplotted the story.
The next arc, 2004's "She Lies With Angels" (
Uncanny X-Men #437—441), was a retelling of the classic Romeo and Juliet story using Josh Guthrie as the male and a girl called Julia Cabot, daughter of a family full of anti-mutant racists, as the female counterpart.
By then, Austen's
X-Men work was widely criticized. Thefourthrail.com strongly rebuked him for "horror-filled destruction of characters and inane plotting" that "defined" his work on
Uncanny X-Men.
In 2004, Austen also wrote
Avengers from #77-84. His first arc introduced a new Captain Britain (since renamed Lionheart). The second Captain Britain was a single mother thrust into the realm of super-heroes. The second arc, which saw Austen writing former Avengers USAgent and Namor, the Sub-Mariner attempting to liberate a middle eastern country from its corrupt leadership, served as launching pad for the short-lived 2004
Invaders series.
The writing stints during
Avengers and
X-Men affected Austen's reputation among comic book fans. Detractors saw him as a "misogynist", who "hate[s] women" and "obsessed with sex". In response, Austen pointed out he was married with children, was raised by a single mother he looked up to and strongly denied misogynist sentiment.
Other work
In 2004 Austen created the independent title
WorldWatch, which he described as being like Warren Ellis's
The Authority, but with more explicit depiction of sex, violence and realpolitik).
The last page of
Worldwatch #2 featured an announcement from the publisher stating that Austen had been fired, and that he would be replaced by notable writer Sam Clemens (the real name of legendary American writer Mark Twain). However, as creator and owner, Austen cannot be fired from
Worldwatch. In a subsequent interview, Austen stated that it was intended as a joke, and that he was disappointed that most readers had not understood it.
From 2004 to 2005, Austen wrote issues 812 - 823 of DC Comics' flagship title
Action Comics, starring
Superman. Austen was criticized by fans for resurrecting the "Silver Age" feud between Superman supporting characters Lois Lane and Lana Lang over Superman, with Lana in particular divorcing longtime husband Pete Ross in the process. Austen controversially left the title
after 10 issues; the next two were written by "J.D. Finn". Austen himself has speculated that the J.D. Finn was in actuality then—''Action Comics'' editor [[Eddie Berganza]], and has denied using the pseudonym.
In 2006, Austen wrote
The Boys of Summer, an Original English Language (OEL), adult-themed manga illustrated by Hiroki Otsuka through TokyoPop. Copies of the first volume were pulled from a number of bookstores in May that year due to its graphic content. Publishers Weekly named
The Boys of Summer of the Top Ten manga/manhwa of 2006, calling it both "a titillating and edgy reading experience." Subsequently, news reports indicated that the series had been cancelled even though the other two volumes were written and drawn, and both Austen and Otsuka had been paid. The first volume is available in English on Amazon.com, and Austen stated that all three would likely see print in other languages, if not in English. He also stated that doing the series was such maturing experience for him as a creator that he would never go back to superheroes or work-for-hire again. A 600-page hardcover edition collecting all three volumes,
The Boys of Summer: The Complete Season, was scheduled for August 2008, but Austen reported it cancelled in a July 2008 interview.