A flurry of federal terrorism investigations and terrorism cases in the United States and abroad monitored Khan and Mohammed's capture. Under CIA interrogation, Khan led the FBI and U.S. counterterrorism officials to individuals whom he associated with including Uzair Paracha and Aafia Siddiqui.
Paracha was held as a material witness before he was charged by the Justice Department in August 2003 for posing as Khan, trying to assist with Khan's immigration documents. Paracha was convicted at trial in 2005 and was sentenced to 30 years in prison.
Siddiqui was mentioned during an August 2004 FBI news conference on a terror alert by FBI Director Robert Mueller as "an al Qaeda operative and facilitator."
Siddiqui was arrested under unclear circumstances in 2008 in the Ghazni province in Afghanistan when she somehow managed to get her hands on the gun of a U.S. service member. She was sent to New York to face charges on attempting to kill U.S. soldiers but was never charged for terrorism offenses.
She was convicted in 2010, and is serving a prison sentence in Texas. She is scheduled for release in 2083, according to Bureau of Prison records.
Secret Department of Defense documents released by online publisher WikiLeaks, based on information from Khan, allege that Mohammed and Paracha's father, Saifullah, attempted to establish a United States P.O. Box for an export-import business that would be used to smuggle explosives into the United States.
Saifullah Paracha is also being detained at Guantanamo Bay but his case has not been referred for a commission hearing.
While only a handful of cases have been processed through the Military Commission, more than 400 individuals have been convicted of terrorism and terrorism-related offenses in U.S. federal courts since the September 11 attacks.
ABC News' Luis Martinez contributed to this report.