Ayman Al-Zawahiri

Ayman Mohammed Rabie al-Zawahiri (June 19, 1951 – July 31, 2022) was an Egyptian-born terrorist and physician who served as the second emir of al-Qaeda from June 16, 2011, until his death.

Al-Zawahiri graduated from Cairo University with a degree in medicine and a master's degree in surgery and was a surgeon by profession. He became a leading figure in the Egyptian Islamic Jihad, an Egyptian Islamist organization, and eventually attained the rank of emir. He was imprisoned from 1981 to 1984 for his role in the assassination of Egyptian President Anwar Sadat. His actions against the Egyptian government, including his planning of the 1995 attack on the Egyptian Embassy in Pakistan, resulted in him being sentenced to death ''in absentia'' during the 1999 "Returnees from Albania" trial.

A close associate of al-Qaeda leader Osama bin Laden, al-Zawahiri held significant sway over the group's operations. Al-Zawahiri was wanted by the United States and the United Nations, respectively, for his role in the 1998 U.S. embassy bombings in Kenya and Tanzania and in the 2002 Bali bombings. He merged the Egyptian Islamic Jihad with al-Qaeda in 2001 and formally became bin Laden's deputy in 2004. He succeeded bin Laden as al-Qaeda's leader after bin Laden's death in 2011. In May 2011, the U.S. announced a $25 million bounty for information leading to his capture.

On July 31, 2022, al-Zawahiri was killed in a U.S. drone strike in Afghanistan.

Personal life

Early life

Ayman al-Zawahiri was born June 19, 1951, in Giza, in what was then the Kingdom of Egypt, to Mohammed Rabie al-Zawahiri and Umayma Azzam.

''The New York Times'' in 2001 described al-Zawahiri as coming from "a prosperous and prestigious family that gives him a pedigree grounded firmly in both religion and politics". Al-Zawahiri's parents both came from prosperous families. Al-Zawahiri's father, Mohammed Rabie al-Zawahiri, came from a large family of doctors and scholars from Kafr Ash Sheikh Dhawahri, Sharqia, in which one of his grandfathers was Sheikh Muhammad al-Ahmadi al-Zawahiri (1887–1944) who was the 34th Grand Imam of al-Azhar. Mohammed Rabie became a surgeon and a professor of pharmacy at Cairo University. Ayman Al-Zawahiri's mother, Umayma Azzam, came from a wealthy, politically active clan, the daughter of Abdel-Wahhab Azzam, a literary scholar who served as the president of Cairo University, the founder and inaugural rector of the King Saud University (the first university in Saudi Arabia) as well as ambassador to Pakistan, while his own brother was Azzam Pasha, the founding secretary-general of the Arab League (1945–1952). From his maternal side yet another relative was Salem Azzam, an Islamist intellectual and activist, for a time secretary-general of the ''Islamic Council of Europe'' based in London. The wealthy and prestigious family is also linked to the Red Sea Harbi tribe in Zawahir, a small town in Saudi Arabia, located in the Badr.
He also has a maternal link to the house of Saud: Muna, the daughter of Azzam Pasha (his maternal great-uncle), is married to Mohammed bin Faisal Al Saud, the son of the late King Faisal.

Ayman Al-Zawahiri said that he has a deep affection for his mother. Her brother, Mahfouz Azzam, became a role model for him as a teenager. He has a younger brother, Muhammad al-Zawahiri, and a twin sister, Heba Mohamed al-Zawahiri. Heba became a professor of medical oncology at the National Cancer Institute, Cairo University. She described her brother as "silent and shy". Muhammad was sentenced on charges of undergoing military training in Albania in 1998. He was arrested in the UAE in 1999, and sentenced to death in 1999 after being extradited to Egypt. He was held in Tora Prison in Cairo as a political detainee. Security officials said he was the head of the Special Action Committee of Islamic Jihad, which organized terrorist operations. After the Egyptian popular uprising in the spring of 2011, on March 17, 2011, he was released from prison by the Supreme Council of the Armed Forces, the interim government of Egypt. His lawyer said he had been held to extract information about his brother Ayman al-Zawahiri. On March 20, 2011, he was re-arrested. On August 17, 2013, Egyptian authorities arrested Muhammad al-Zawahiri at his home in Giza. He was acquitted in 2017.

Youth

Ayman al-Zawahiri was reportedly a studious youth. He excelled in school, loved poetry, and "hated violent sports", which he thought were "inhumane." Al-Zawahiri studied medicine at Cairo University and graduated in 1974 with '' gayyid giddan'', or roughly on par with a grade of "B" in the American grading system. Following that, he served 1974–1978 as a surgeon in the Egyptian Army after which he established a clinic near his parents in Maadi. In 1978, he also earned a master's degree in surgery. He spoke Arabic, English, and French.

Al-Zawahiri participated in youth activism as a student. He became both quite pious and political, under the influence of his uncle Mahfouz Azzam, and lecturer Mostafa Kamel Wasfi. El-Zayyat, Montasser, "Qaeda", 2004. tr. by Ahmed Fakry Sayyid Qutb preached that to restore Islam and free Muslims, a vanguard of true Muslims modeling itself after the original Companions of the Prophet had to be developed. Ayman al-Zawahiri was influenced by Qutb's Manichaean views on Islamic theology and Islamic history.

Underground cell

By the age of 15, al-Zawahiri had formed an underground cell with the goal to overthrow the government and establish an Islamist state. The following year the Egyptian government executed Sayyid Qutb for conspiracy. Following the execution, al-Zawahiri, along with four other secondary school students, helped form an "underground cell devoted to overthrowing the government and establishing an Islamist state." It was at this early age that al-Zawahiri developed a mission in life, "to put Qutb's vision into action." His cell eventually merged with others to form al-Jihad or Egyptian Islamic Jihad.Wright, p. 42.

Marriages and children

Ayman al-Zawahiri was married at least four times. His wives include Azza Ahmed Nowari and Umaima Hassan.

In 1978, al-Zawahiri married his first wife, Azza Ahmed Nowari, a student at Cairo University who was studying philosophy. Their wedding, which was held at the Continental Hotel in Opera Square, was very conservative, with separate areas for both men and women, and no music, photographs, or gaiety in general. Many years later, when the United States attacked Afghanistan following the September 11 attacks in October 2001, Azza apparently had no idea that al-Zawahiri had supposedly been a jihadi emir (commander) for the last decade.

Al-Zawahiri and his wife, Azza, had four daughters, Fatima (born 1981), Umayma (born 1983), Nabila (born 1986), and Khadiga (born 1987), and a son, Mohammed (also born in 1987; the twin brother of Khadiga), who was a "delicate, well-mannered boy" and "the pet of his older sisters," subject to teasing and bullying in a traditionally all-male environment, who preferred to "stay at home and help his mother." In 1997, ten years after the birth of Mohammed, Azza gave birth to their fifth daughter, Aisha, who had Down syndrome. In February 2004, Abu Zubaydah was waterboarded and subsequently stated that Abu Turab Al-Urduni had married one of al-Zawahiri's daughters.

Ayman al-Zawahiri's first wife Azza and two of their six children, Mohammad and Aisha, were killed in an airstrike on Afghanistan by US forces in late December 2001, following the September 11 attacks on the U.S. After an American aerial bombardment of a Taliban-controlled building at Gardez, Azza was pinned under the debris of a guesthouse roof. Concerned for her modesty, she "refused to be excavated" because "men would see her face" and she died from her injuries the following day. Her son, Mohammad, was also killed outright in the same house. Her four-year-old daughter with Down syndrome, Aisha, had not been hurt by the bombing, but died from exposure in the cold night while Afghan rescuers tried to save Azza.

In the first half of 2005, one of Al-Zawahiri's three surviving wives gave birth to a daughter, named Nawwar.

In June 2012, one of al-Zawahiri's four wives, Umaima Hassan, released a statement on the internet congratulating the role played by Muslim women in the Arab Spring. She is also known to have written a leaflet explaining women's role in jihad.

Medical career

In 1981, Ayman al-Zawahiri traveled to Peshawar, Pakistan, where he worked in a Red Crescent hospital treating wounded refugees. There, he became friends with Ahmed Khadr, and the two shared a number of conversations about the need for Islamic government and the needs of the Afghan people.Michelle Shephard, "Guantanamo's Child", 2008.

Ayman al-Zawahiri worked as a surgeon. In 1985, al-Zawahiri went to Saudi Arabia on Hajj and stayed to practice medicine in Jeddah for a year. As a reportedly qualified surgeon, when his organization merged with bin Laden's al-Qaeda, he became bin Laden's personal advisor and physician. He had first met bin Laden in Jeddah in 1986. According to other sources, they met the first time in 1986 at a hospital in Peshawar.

In 1993, al-Zawahiri traveled to the United States, where he addressed several mosques in California under his ''Abdul Mu'iz'' pseudonym, relying on his credentials from the Kuwaiti Red Crescent to raise money for Afghan children who had been injured by Soviet land mines—he raised only $2000.

Militant activity

Assassination plots

Egypt

In 1981, Al-Zawahiri was one of hundreds arrested following the assassination of President Anwar Sadat. Initially, the plan was derailed when authorities were alerted to Al-Jihad's plan by the arrest of an operative carrying crucial information, in February 1981. President Sadat ordered the roundup of more than 1,500 people, including many Al-Jihad members, but missed a cell in the military led by Lieutenant Khalid Islambouli, who succeeded in assassinating Sadat during a military parade that October. His lawyer, Montasser el-Zayat, said that al-Zawahiri was tortured in prison.

In his book, ''Al-Zawahiri as I Knew Him'', Al-Zayat maintains that under torture by the Egyptian police, following his arrest in connection with the murder of Sadat in 1981, Al-Zawahiri revealed the hiding place of Essam al-Qamari, a key member of the Maadi cell of al-Jihad, which led to Al-Qamari's "arrest and eventual execution." He was released from prison in 1984.

In 1993, al-Zawahiri's and Egyptian Islamic Jihad's ( EIJ) connection with Iran may have led to a suicide bombing in an attempt on the life of Egyptian Interior Minister Hasan al-Alfi, the man heading the effort to quash the campaign of Islamist killings in Egypt. It failed, as did an attempt to assassinate Egyptian prime minister Atef Sidqi three months later. The bombing of Sidqi's car injured 21 Egyptians and killed a schoolgirl, Shayma Abdel-Halim. It followed two years of killings by another Islamist group, al-Gama'a al-Islamiyya, that had killed over 200 people. Her funeral became a public spectacle, with her coffin carried through the streets of Cairo and crowds shouting, "Terrorism is the enemy of God!"Wright, p. 186. The police arrested 280 more of al-Jihad's members and executed six.

For their leading role in anti-Egyptian Government attacks in the 1990s, al-Zawahiri and his brother Muhammad al-Zawahiri were sentenced to death in the 1999 Egyptian case of the Returnees from Albania.

Pakistan

The 1995 attack on the Egyptian embassy in Islamabad, Pakistan, was carried out by the Egyptian Islamic Jihad under al-Zawahiri's leadership, but Bin Laden had disapproved of the operation. The bombing alienated Pakistan, which was "the best route into Afghanistan".

In July 2007, Al-Zawahiri supplied direction for the Lal Masjid siege, codename Operation Silence. This was the first confirmed time that Al-Zawahiri was taking militant steps against the Pakistani Government and guiding Islamic militants against the State of Pakistan. The Pakistan Army troops and Special Service Group taking control of the Lal Masjid ("Red Mosque") in Islamabad found letters from al-Zawahiri directing Islamic militants Abdul Rashid Ghazi and Abdul Aziz Ghazi, who ran the mosque and adjacent madrasah. This conflict resulted in 100 deaths.

On December 27, 2007, al-Zawahiri was also implicated in the assassination of former Pakistani Prime Minister Benazir Bhutto.

Sudan

In 1994, the sons of Ahmad Salama Mabruk and Mohammed Sharaf were executed under al-Zawahiri's leadership for betraying Egyptian Islamic Jihad; the militants were ordered to leave the Sudan.Sageman, Marc, ''Understanding Terror Networks'', University of Pennsylvania Press, 2004, p. 45.

United States

In 1998, Ayman al-Zawahiri was listed as under indictment in the United States for his role in the 1998 U.S. embassy bombings: a series of attacks on August 7, 1998, in which hundreds of people were killed in simultaneous truck bomb explosions at the United States embassies in the major East African cities of Dar es Salaam, Tanzania, and Nairobi, Kenya.

In 2000, the USS ''Cole'' bombing encouraged several members to depart. Mohammed Atef escaped to Kandahar, al-Zawahiri to Kabul, and Bin Laden also fled to Kabul, later joining Atef when he realised no American reprisal attacks were forthcoming.

On October 10, 2001, al-Zawahiri appeared on the initial list of the U.S. Federal Bureau of Investigation's top 22 Most Wanted Terrorists, which was released to the public by U.S. President George W. Bush. In early November 2001, the Taliban government announced they were bestowing official Afghan citizenship on him, as well as Bin Laden, Mohammed Atef, Saif al-Adl, and Shaykh Asim Abdulrahman.

Organizations

Egyptian Islamic Jihad

Al-Zawahiri began reconstituting the Egyptian Islamic Jihad (EIJ) along with other exiled militants.

In Peshwar, al-Zawahiri was thought to have become radicalized by other Al-Jihad members, abandoning his old strategy of a swift coup d'état to change society from above, and embracing the idea of takfir. In 1991, EIJ broke with al-Zumur, and al-Zawahiri grabbed "the reins of power" to become EIJ leader.

Ayman al-Zawahiri was previously the second and last "emir" of the Egyptian Islamic Jihad, having succeeded Abbud al-Zumar in the latter role when Egyptian authorities sentenced al-Zumar to life imprisonment. Ayman al-Zawahiri eventually became one of Egyptian Islamic Jihad's leading organizers and recruiters. Al-Zawahiri's hope was to recruit military officers and accumulate weapons, waiting for the right moment to launch "a complete overthrow of the existing order."Wright, p. 49. Chief strategist of Al-Jihad was Aboud al-Zumar, a colonel in the military intelligence whose plan was to kill the main leaders of the country, capture the headquarters of the army and State Security, the telephone exchange building, and of course the radio and television building, where news of the Islamic revolution would then be broadcast, unleashing – he expected – "a popular uprising against secular authority all over the country."

Maktab al-Khadamat

In Peshawar, he made contact with Osama bin Laden, who was running a base for ''mujahideen'' called Maktab al-Khadamat (MAK); founded by the Palestinian Sheikh Abdullah Yusuf Azzam. The radical position of al-Zawahiri and the other militants of Al-Jihad put them at odds with Sheikh Azzam, with whom they competed for bin Laden's financial resources. Al-Zawahiri carried two false passports, a Swiss one in the name of Amin Uthman and a Dutch one in the name of Mohmud Hifnawi.Canadian Security Intelligence Service
Summary of the Security Intelligence Report concerning Mahmoud Jaballah
February 22, 2008.

British journalist Jason Burke wrote: "Al-Zawahiri ran his own operation during the Afghan war, bringing in and training volunteers from the Middle East. Some of the $500 million the CIA poured into Afghanistan reached his group."

Former FBI agent Ali Soufan mentioned in his book ''The Black Banners'' that Ayman al-Zawahiri is suspected of ordering Azzam's assassination in 1989.

Al-Qaeda

According to reports by a former al-Qaeda member, al-Zawahiri worked in the al-Qaeda organization since its inception and was a senior member of the group's ''shura'' council. He was often described as a "lieutenant" to Osama bin Laden, though bin Laden's chosen biographer has referred to him as the "real brains" of al-Qaeda.

On February 23, 1998, al-Zawahiri issued a joint fatwa with Osama bin Laden under the title " World Islamic Front Against Jews and Crusaders". Al-Zawahiri, not bin Laden, is thought to have been the actual author of the fatwa.

Bin Laden and al-Zawahiri organized an al-Qaeda congress on June 24, 1998. A week prior to the beginning of the conference, a group of well-armed assistants to al-Zawahiri had left by jeeps in the direction of Herat. Following the instructions of their patron, in the town of Koh-i-Doshakh, they met three unknown Slavic-looking men who had arrived from Russia via Iran. After their arrival in Kandahar, they split up. One of the Russians was directly escorted to al-Zawahiri and he did not participate in the conference. Western military intelligence succeeded in acquiring photographs of him, but he disappeared for six years. According to Axis Globe, in 2004, when Qatar and the U.S. investigated Russian embassy officials whom the United Arab Emirates had arrested in connection to the murder of Zelimkhan Yandarbiyev in Qatar, computer software precisely established that a man who had walked to the Russian embassy in Doha was the same one who visited al-Zawahiri prior to the Al-Qaida conference.

Al-Zawahiri was placed under international sanctions in 1999 by the United Nations' Al-Qaida and Taliban Sanctions Committee as a member of the Salafi-jihadist group al-Qaeda.

In June 2001, al-Zawahiri formally merged the Egyptian Islamic Jihad into al-Qaeda.

In late 2001, a computer was seized that was stolen from an office used by al-Qaeda immediately after the fall of Kabul in November. This computer was mainly used by al-Zawahiri and contained the letter with an interview request for Ahmad Shah Massoud. The journalists who conducted the interview assassinated Massoud on September 9, 2001.

= Emergence as al-Qaeda's chief commander

=
In late 2004 bin Laden named al-Zawahiri officially as his deputy. On April 30, 2009, the U.S. State Department reported that al-Zawahiri had emerged as al-Qaeda's operational and strategic commander, and that Osama bin Laden was now only the ideological figurehead of the organization. After the 2011 death of bin Laden, a senior U.S. intelligence official said intelligence gathered in the raid showed that bin Laden remained deeply involved in planning: "This compound (where bin Laden was killed) in Abbottabad was an active command-and-control center for al-Qaeda's leader. He was active in operational planning and in driving tactical decisions within al-Qaeda."

Following the death of bin Laden, former U.S. Deputy National Security Advisor for Combating Terrorism Juan Zarate said that al-Zawahiri would "clearly assume the mantle of leadership" of al-Qaeda. A senior U.S. administration official said that although al-Zawahiri was likely to be al-Qaeda's next leader, his authority was not "universally accepted" among al-Qaeda's followers, particularly in the Gulf region. Zarate said that al-Zawahiri was more controversial and less charismatic than bin Laden. Rashad Mohammad Ismail (AKA "Abu Al-Fida"), a leading member of al-Qaeda in the Arabian Peninsula, stated that al-Zawahiri was the best candidate.

Hamid Mir is reported to have said that he believed that Ayman al-Zawahiri was the operational head of al-Qaeda, and that " is the person who can do the things that happened on September 11." Within days of the attacks, al-Zawahiri's name was put forward as bin Laden's second-in-command, with reports suggesting he represented "a more formidable US foe than bin Laden."

= Formal appointment

=
Al-Zawahiri became the leader of al-Qaeda following the May 2, 2011 killing of Osama bin Laden. His succession to that role was announced on several of their websites on June 16, 2011. On the same day, al-Qaeda renewed its position that Israel was an illegitimate state and that it would not accept any compromise on Palestine.

The delayed announcement led some analysts to speculate that there was quarreling within al-Qaeda: "It doesn't suggest a vast reservoir of accumulated goodwill for him," said one celebrity journalist on CNN. Both U.S. Secretary of Defense Robert Gates and Chairman of the Joint Chiefs of Staff Mike Mullen maintain that the delay didn't signal any kind of dispute within al-Qaeda, and Mullen reiterated U.S. death threats toward al-Zawahiri. According to US officials within the Obama administration and Robert Gates, al-Zawahiri would find the leadership difficult as, while intelligent, he lacks combat experience and the charisma of Osama bin Laden.

Activities in Iran

Al-Zawahiri allegedly worked with the Islamic Republic of Iran on behalf of al-Qaeda. Author Lawrence Wright reports that EIJ operative Ali Mohammed "told the FBI that al-Jihad had planned a coup in Egypt in 1990." Al-Zawahiri had studied the 1979 Islamist Islamic Revolution and "sought training from the Iranians" as to how to duplicate their feat against the Egyptian government.

In public, al-Zawahiri harshly denounced the Iranian government. In December 2007, he said, "We discovered Iran collaborating with America in its invasions of Afghanistan and Iraq." In the same video messages, he moreover chides Iran for "repeating the ridiculous joke that says that al-Qaida and the Taliban are agents of America," before playing a video clip in which Ayatollah Rafsanjani says, "In Afghanistan, they were present in Afghanistan, because of Al-Qa'ida; and the Taliban, who created the Taliban? America is the one who created the Taliban, and America's friends in the region are the ones who financed and armed the Taliban."

Al-Zawahiri's criticism of Iran's government continues when he states,

Al-Zawahiri said that "Iran stabbed a knife into the back of the Islamic Nation."

In April 2008, al-Zawahiri blamed Iranian state media and Al-Manar for perpetuating the "lie" that "there are no heroes among the Sunnis who can hurt America as no-one else did in history" in order to discredit the Al Qaeda network. Al-Zawahiri was referring to some 9/11 conspiracy theories that claim that Al Qaeda was not responsible for the 9/11 attacks.

On the seventh anniversary of the attacks of September 11, 2001, al-Zawahiri released a 90-minute tape in which he blasted "the guardian of Muslims in Tehran" for recognizing "the two hireling governments" in Iraq and Afghanistan.

Activities in Russia

At some point in 1994, al-Zawahiri was said to have "become a phantom"Wright, p. 250. but is thought to have traveled widely to "Switzerland and Sarajevo". A fake passport he was using shows that he traveled to Malaysia, Taiwan, Singapore, and Hong Kong.

On December 1, 1996, Ahmad Salama Mabruk and Mahmud Hisham al-Hennawi – both carrying false passports – accompanied al-Zawahiri on a trip to Chechnya, where they hoped to re-establish the faltering Jihad. Their leader was traveling under the pseudonym ''Abdullah Imam Mohammed Amin'', and trading on his medical credentials for legitimacy. The group switched vehicles three times, but were arrested within hours of entering Russian territory and spent five months in a Makhachkala prison awaiting trial. The trio pleaded innocence, maintaining their disguise while other al-Jihad members from ''Bavari-C'' sent the Russian authorities pleas for leniency for their "merchant" colleagues who had been wrongly arrested. Russian Member of Parliament Nadyr Khachiliev echoed the pleas for their speedy release as al-Jihad members Ibrahim Eidarous and Tharwat Salah Shehata traveled to Dagestan to plead for their release. Shehata received permission to visit the prisoners. He is believed to have smuggled $3000 to them, which was later confiscated, and to have given them a letter which the Russians didn't bother to translate. In April 1997 the trio were sentenced to six months, were subsequently released a month later, and absconded without paying their court-appointed attorney Abulkhalik Abdusalamov his $1,800 legal fee, citing "poverty".The Wall Street Journal, "Saga of Dr. Zawahri Sheds Light On the Roots of al Qaeda Terror". Shehata was sent on to Chechnya where he met with Ibn Khattab.

There have been doubts as to the true nature of al-Zawahiri's encounter with the Russians in 1996. Jamestown Foundation scholar Evgenii Novikov has argued that it seems unlikely that the Russians would not have been able to determine who he was, given Russia's well-trained Arabists and the suspicious acts of Muslims crossing borders illegally with multiple Arabic false identities and encrypted documents. Assassinated former FSB secret service officer Alexander Litvinenko alleged, among other things, that during this time al-Zawahiri was trained by the FSB and that he was not the only link between al-Qaeda and the FSB. Former KGB officer, Voice of America commentator and writer Konstantin Preobrazhenskiy supported Litvinenko's claim. He said that Litvinenko "was responsible for securing the secrecy of Al-Zawahiri's arrival in Russia, who was trained by FSB instructors in Dagestan, Northern Caucasus, during 1996–1997."

Activities in Egypt

Al-Zawahiri was convicted of dealing in weapons and received a three-year sentence, which he completed in 1984, shortly after his conviction.

Al-Zawahiri learned of a " Nonviolence Initiative" organized in Egypt to end the terror campaign that had killed hundreds and resulting government crackdown that had imprisoned thousands. Al-Zawahiri angrily opposed this "surrender" in letters to the London newspaper '' Al-Sharq al-Awsat''. Together with members of al-Gama'a al-Islamiyya, he helped organize a massive attack on tourists at the Temple of Hatshepsut to sabotage the initiative by provoking the government into repression.

The attack by six men dressed in police uniforms succeeded in machine-gunning and hacking to death 58 foreign tourists and four Egyptians, including "a five-year-old British child and four Japanese couples on their honeymoons," and devastated the Egyptian tourist industry for a number of years. Nonetheless, the Egyptian reaction was not what al-Zawahiri had hoped for. The attack so stunned and angered Egyptian society that Islamists denied responsibility. Al-Zawahiri blamed the police for the killing, but also held the tourists responsible for their own deaths for coming to Egypt,

Al-Zawahiri was sentenced to death ''in absentia'' in 1999 by an Egyptian military tribunal.

Activities and whereabouts after the September 11 attacks

In December 2001, al-Zawahiri published a book entitled ''Fursan Rayat al Nabi'' (''Knights Under the Prophet's Banner'') which outlined ideologies of al-Qaeda. English translations of this book were published; excerpts are available online.

Following the U.S. invasion of Afghanistan, al-Zawahiri's whereabouts were unknown, but he was generally thought to be in tribal Pakistan. Although he released videos of himself frequently, al-Zawahiri did not appear alongside bin Laden in any of them after 2003. In 2003, it was rumored that he was under arrest in Iran, although this was later discovered to be false.

On January 13, 2006, the Central Intelligence Agency, aided by Pakistan's ISI, launched an airstrike on Damadola, a Pakistani village near the Afghan border where they believed al-Zawahiri was located. The airstrike was supposed to kill al-Zawahiri and this was reported in international news over the following days. Many victims of the airstrike were buried unidentified. Anonymous U.S. government officials claimed that some terrorists were killed and the Bajaur tribal area government confirmed that at least four terrorists were among the dead. Anti-American protests broke out around the country and the Pakistani government condemned the U.S. attack and the loss of innocent life.

On August 1, 2008, CBS News reported that it had obtained a copy of an intercepted letter dated July 29, 2008, from unnamed sources in Pakistan, which urgently requested a doctor to treat al-Zawahiri. The letter indicated that al-Zawahiri was critically injured in a US missile strike at Azam Warsak village in South Waziristan on July 28 that also reportedly killed al Qaeda explosives expert Abu Khabab al-Masri. Taliban Mehsud spokesman Maulvi Umar told the Associated Press on August 2, 2008, that the report of al-Zawahiri's injury was false.

In early September 2008, Pakistan Army claimed that they "almost" captured al-Zawahiri after getting information that he and his wife were in the Mohmand Agency, in northwest Pakistan. After raiding the area, officials didn't find him.

In two videos posted on Jihadist websites in 2012, al-Zawahiri called on Muslims to "capture" foreign citizens to leverage the release of Omar Abdel-Rahman, mastermind of the 1993 World Trade Center bombing. In the videos, al-Zawahiri cited to the successful kidnapping of Jewish American Warren Weinstein in 2011 as precedent for further kidnappings. Al-Zawahiri also called for the institution of Sharia law in Egypt and questioned the views of then-President of Egypt Mohamed Morsi

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