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Plea deal for alleged 9/11 mastermind thrown out by appeals court

by Jake Ryan
July 11, 2025
Reading Time: 4 mins read
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Plea deal for alleged 9/11 mastermind thrown out by appeals court

A divided federal appeals court on Friday threw out an agreement that would have allowed accused Sept. 11 mastermind Khalid Sheikh Mohammed to plead guilty in a deal sparing him the risk of execution for al Qaeda’s 2001 attacks.

The decision by a panel of the federal appeals court in Washington, D.C., undoes an attempt to wrap up more than two decades of military prosecution beset by legal and logistical troubles. It signals there will be no quick end to the long struggle by the U.S. military and successive administrations to bring to justice the man charged with planning one of the deadliest attacks ever on the United States.

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The deal, negotiated over two years and approved by military prosecutors and the Pentagon’s senior official for Guantanamo Bay, Cuba, a year ago, stipulated life sentences without parole for Mohammed and two co-defendants.

Mohammed is accused of developing and directing the plot to crash hijacked airliners into the World Trade Center and the Pentagon. Another of the hijacked planes flew into a field in Pennsylvania.

Relatives of the Sept. 11 victims were split on the plea deal. Some objected to it, saying a trial was the best path to justice and to gaining more information about the attacks, while others saw it as the best hope for bringing the painful case to a conclusion and getting some answers from the defendants.

The plea deal would have obligated the men to answer any lingering questions that families of the victims have about the attacks.

But then-Defense Secretary Lloyd Austin repudiated the deal, saying a decision on the death penalty in an attack as grave as Sept. 11 should only be made by the defense secretary. 

“The Secretary of Defense indisputably had legal authority to withdraw from the agreements; the plain and unambiguous text of the pretrial agreements shows that no performance of promises had begun,” Friday’s decision reads in part.

In January, the U.S. Justice Department filed a motion seeking to stop the plea deal.

“The allegations against the respondents set forth their extensive roles as the counselors, commanders, and conspirators in the murder of 2,976 people, the injury of numerous civilians and military personnel, and the destruction of property worth tens of billions of dollars,” the filing said, arguing later that “this Court should issue a writ of mandamus and prohibition to the military commission directing it to recognize that the Secretary validly withdrew from the pretrial agreements with the respondents and prohibiting the military commission from conducting hearings in which the respondents would enter guilty pleas pursuant to the invalid pretrial agreements.”

Attorneys for the defendants had argued that the agreement was already legally in effect and that Austin, who served under President Joe Biden, acted too late to try to throw it out. A military judge at Guantanamo and a military appeals panel agreed with the defense lawyers.

But, by a 2-1 vote, the U.S. Court of Appeals for the District of Columbia Circuit found Austin acted within his authority and faulted the military judge’s ruling.

The panel had previously put the agreement on hold while it considered the appeal, first filed by the Biden administration and then continued under President Trump.

“Having properly assumed the convening authority, the Secretary determined that the ‘families and the American public deserve the opportunity to see military commission trials carried out.’ The Secretary acted within the bounds of his legal authority, and we decline to second-guess his judgment,” Judges Patricia Millett and Neomi Rao wrote.

Millett was an appointee of President Barack Obama, while Rao was appointed by Mr. Trump.

In a dissent, Judge Robert Wilkins, an Obama appointee, wrote, “The government has not come within a country mile of proving clearly and indisputably that the Military Judge erred.”

Brett Eagleson, who was among the family members who objected to the deal, called Friday’s appellate ruling “a good win, for now.”

“A plea deal allows this to be tucked away into a nice, pretty package, wrapped into a bow and put on a shelf and forgotten about,” said Eagleson, who was 15 when his father, shopping center executive John Bruce Eagleson, was killed in the attacks.

Brett Eagleson was unmoved by the deal’s provisions for the defendants to answer Sept. 11 families’ questions; he wonders how truthful the men would be. In his view, “the only valid way to get answers and seek the truth is through a trial” and pretrial fact-finding.

Elizabeth Miller, who was 6 when the attacks killed her father, firefighter Douglas Miller, was among those who supported the deal.

“Of course, growing up, a trial would have been great initially,” she said. But “we’re in 2025, and we’re still at the pretrial stage.”

“I just really don’t think a trial is possible,” said Miller, who also favored the deal because of her opposition to the death penalty in general.

The legal advocacy group Center for Constitutional Rights criticized the decision, saying that without the plea agreements, the case will never be resolved.

“This decision will ensure nothing but a continued lack of justice and accountability for everyone involved in the 9/11 military trial at Guantánamo,” attorney Wells Dixon said in a statement.

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Jake Ryan

Jake Ryan is a social media manager and journalist based in Tulsa, Oklahoma. When he's not playing rust, he's either tweeting, walking, or writing about Oklahoma stuff.

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