Dina Temple-Raston

In a courtroom at Guantanamo Bay on Wednesday, the man accused of masterminding the bombing of the USS Cole in 2000, Abd al-Rahim al-Nashiri, is expected to testify about the more than four years he spent in secret CIA prisons. Al-Nashiri is one of three terrorism suspects the U.S. government has admitted to waterboarding, so his testimony could be explosive. And that's why, critics argue, the government is trying to ensure that al-Nashiri's testimony be heard in secret.

The chief prosecutor for the military commissions at Guantanamo Bay, Cuba, is arguing a difficult case: that the commissions are not only fair, but can take pride of place alongside the civilian criminal justice system.

Brig. Gen. Mark Martins is the chief prosecutor for the commissions, the courts at the naval base that try high-profile terrorism suspects.

He has been called Guantanamo's detox man largely because he has made it his mission to show that the military commissions system at Guantanamo is no longer a toxic version of victor's justice.

NPR has learned that the top prosecutor at the Guantanamo Bay military commissions has asked to retire from the military after he finishes his assignment there.

Brig. Gen. Mark Martins says he hopes the decision will drain some of the politics out of the chief prosecutor's position and will provide some continuity.

There has been a subtle shift taking place in the intelligence community in recent months.

Intelligence and law enforcement officials say analysts and experts who have been tracking al-Qaida for more than a decade have been quietly reassigned. Some are being moved completely out of al-Qaida units. Others are being asked to spend less time watching al-Qaida and more time tracking more traditional foes — like state-sponsored terrorists.

U.S. intelligence officials tracking the situation in Syria have their eye on one group in particular: al-Qaida's affiliate in Iraq.

The group has longstanding ties to Syria, and its early members weren't just Iraqis; many of them were Syrians. The former leader of al-Qaida in Iraq, Abu Musab al-Zarqawi, not only established a network of fighters in Syria, but he also folded them into his northern Iraqi faction of al-Qaida.

The Obama administration is seeking to try a Lebanese man linked to Hezbollah in a military commission, expanding the reach of the military tribunal beyond al-Qaida and Taliban suspects for the first time.

The man at the center of the case is Ali Musa Daqduq. He was the last detainee held by American forces in Iraq and had been turned over to Iraqi custody when U.S. forces formally withdrew from Iraq in December.

The man who tried to blow up a U.S. passenger plane three Christmases ago was sentenced to life in prison in a Detroit courtroom today. Umar Farouk Abdulmutallab, 25, boarded Northwest Flight 253 in Amsterdam on Dec. 25, 2009, with a massive bomb hidden in his underwear. As the plane approached Detroit, he tried to detonate the explosives. They failed to go off.

Four months ago, on the second day of his criminal trial, Abdulmutallab pleaded guilty.

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SCOTT SIMON, HOST:

A legal case in Britain involving a radical cleric has raised new questions about whether authorities can hold a suspected terrorist forever. An immigration judge ruled Monday that a longtime terrorism suspect and detainee in the U.K. should be released on bail.

A request for a delay in the Sept. 11 case at Guantanamo has been denied.

Two lawyers close to the proceedings tell NPR that a military judge denied their request to delay the arraignment of the Sept. 11 suspects at Guantanamo until the summer.

The lawyers were asking for more time to file memos on why Khalid Sheikh Mohammed and his alleged co-conspirators should not be tried in a capital case and be eligible for the death penalty. The 911 suspects are expected to be arraigned before a military commission as early as April.

Anyone watching the recent court proceedings in the military commissions at Guantanamo Bay couldn't have helped but notice that several of the lawyers sitting on the prosecution side of the courtroom were not in uniform. That's because two of the five lawyers prosecuting the alleged mastermind of the USS Cole attack aren't members of the military at all: They are lawyers from the Justice Department.

Just months after the killings of Osama bin Laden and radical cleric Anwar al-Awlaki, U.S. intelligence officials are trying to assess just how dangerous al-Qaida still is.

They seem to agree that core al-Qaida — the group that launched the Sept. 11 attacks and looked to bin Laden for guidance — is in trouble.

Now, the discussion is about a loose affiliation of groups that present a diffuse and entirely different threat.

The 20 detainees who stumbled down the gangway had been put on a nonstop flight from Kandahar, Afghanistan, to Cuba. The men came from all over the Middle East and Africa: Yemen, Sudan, Tunisia, Afghanistan. They all wore the same blackened goggles, earmuffs and orange socks as U.S. soldiers guided them from the plane by their elbows.

The long-awaited trial of five men accused of helping plan the Sept. 11 attacks is scheduled to begin early this year in a revamped trial process at Guantanamo Bay, Cuba.

Initially, Khalid Sheikh Mohammed and four other men charged with planning the attacks were going to be tried in a New York federal court, but congressional opposition forced the Obama administration to reverse course.

Terrorist groups seemed to be all over the Web in 2011. There were al-Qaida videos on YouTube, Facebook pages by Islamic militants in Somalia, and webzines – like Inspire magazine – produced by al-Qaida affiliates in Yemen.

If there were an award for the best known terrorist music recording in the past couple of years, it would probably go to the Somali militia group al-Shabab for a YouTube video that extolled the virtues of jihad, or holy war.