[incarcerated]

The Pakistani military saw an indigenous Muslim uprising in Indian-administered Kashmir in 1989 as a way to revive its claims over Muslim-majority Kashmir. It did not take long before the military began developing small guerrilla armies of Kashmiri Islamist irregulars for operations against India. When he was a two-star general and the army’s director-general of military operations, former Pakistani President Pervez Musharraf played a leading role in refining the plan, which became fully operational in the 1999 Kargil War. Pakistan’s war strategy was to infiltrate Kashmiri Islamist guerrillas across the Line of Control (LoC) while Pakistani forces occupied high-altitude positions on Kargil Mountain. When India became aware of the infiltration, it sought to dislodge the guerrillas, at which point Pakistani artillery opened up on Indian troops positioned at lower-altitude base camps. While the Pakistani plan was initially successful, Indian forces soon regained the upper hand and U.S. pressure helped force a Pakistani retreat.

But the defeat at Kargil did not stop Pakistan from pursuing its Islamist militant proxy project in Kashmir. Groups such as Lashkar-e-Taiba (LeT), Hizb-ul-Mujahideen, Harkat-ul-Jihad-al-Islami, Jaish-e-Mohammed (JeM) and Al Badr spread their offices and training camps throughout Pakistani-occupied Kashmir under the guidance of the ISI. Whenever Islamabad felt compelled to turn up the heat on New Delhi, these militants would carry out operations against Indian targets, mostly in the Kashmir region.

India, meanwhile, would return the pressure on Islamabad by supporting Baluchi rebels in western Pakistan and providing covert support to the ethnic Tajik-dominated Northern Alliance, the Taliban’s main rival in Afghanistan. While Pakistan grew more and more distracted by supporting its Islamist proxies in Kashmir, the Taliban grew more attached to al Qaeda, which provided fighters to help the Taliban against the Northern Alliance as well as funding when the Taliban were crippled by an international embargo. As a result, al Qaeda extended its influence over the Taliban government, which gave al Qaeda free rein to plan and stage the deadliest terrorist attack to date against the West.

The Post 9/11 Environment

On Sept. 11, 2001, when the World Trade Center towers and the Pentagon were attacked, the United States put Pakistan in a chokehold: Cooperate immediately in toppling the Taliban regime, which Pakistan had nurtured for years, or face destruction. Musharraf tried to buy some time by reaching out to Taliban leaders like Mullah Omar to give up bin Laden, but the Taliban chief refused, making it clear that Pakistan had lost against al Qaeda in the battle for influence over the Taliban.

Just a few months after the 9/11 attacks, in December 2001, Kashmiri Islamist militants launched a major attack on the Indian parliament in New Delhi. Still reeling from the pressure it was receiving from the United States, Islamabad was now faced with the wrath of India. Both dealing with an Islamist militant threat, New Delhi and Washington tag-teamed Islamabad and tried to get it to cut its losses and dismantle its Islamist militant proxies.

To fend off some of the pressure, the Musharraf government banned LeT and JeM, two key Kashmiri Islamist groups fostered by the ISI and with close ties to al Qaeda. India was unsatisfied with the ban, which was mostly for show, and proceeded to mass a large military force along the LoC in Kashmir. The Pakistanis responded with their own deployment, and the two countries stood at the brink of nuclear war. U.S. intervention allowed India and Pakistan to step back from the precipice. In the process, Washington extracted concessions from Islamabad on the counterterrorism front, and official Pakistani support for the Afghan Taliban withered within days.

The Devolution of the ISI

The post 9/11 shake-up ignited a major crisis in the Pakistani military establishment. On one hand, the military was under extreme pressure to stamp out the jihadists along its western border. On the other hand, the military was fearful of U.S. and Indian interests aligning against Pakistan. Islamabad’s primary means of keeping Washington as an ally was its connection to the jihadist insurgency in Afghanistan. So Islamabad played a double game, offering piecemeal cooperation to the United States while maintaining ties with its Islamist militant proxies in Afghanistan.

But the ISI’s grip over these proxies was already loosening. In the run-up to 9/11, al Qaeda not only had close ties to the Taliban regime, but also had reached out to ISI handlers whose job it was to maintain links with the array of Islamist militant proxies supported by Islamabad. Many of the intelligence operatives who had embraced the Islamist ideology were working to sabotage Islamabad’s new alliance with Washington, which threatened to destroy the Islamist militant universe they had created. While the ISI leadership was busy trying to adjust to the post-9/11 operating environment, others within the middle and junior ranks of the agency started to engage in activities not necessarily sanctioned by their leadership.

As the influence of the Pakistani state declined, al Qaeda’s influence rose. By the end of 2003, Musharraf had become the target of at least three al Qaeda assassination attempts. In the spring of 2004, Musharraf — again under pressure from the United States — was forced to send troops into the tribal badlands for the first time in the history of the country. Pakistani military operations to root out foreign fighters ended up killing thousands in the Pashtun areas, creating massive resentment against the central government.

In October 2006, when a deadly U.S. Predator strike hit a madrassah in Bajaur agency, killing 82 people, the stage was set for a jihadist insurgency to move into Pakistan proper. The Pakistani Taliban linked up with al Qaeda to carry out scores of suicide attacks, most against military targets and all aiming to break Islamabad’s resolve to combat the insurgency. A major political debacle threw Islamabad off course in March 2007, when Musharraf’s government was hit by a pro-democracy movement after he dismissed the country’s chief justice. Four months later, a raid on Islamabad’s Red Mosque, which Islamist militants had occupied, threw more fuel onto the insurgent fires, igniting suicide attacks in major Pakistani cities like Karachi and Islamabad, while the writ of the state continued to erode in the NWFP and FATA.

Musharraf was forced to step down as army chief in November 2007 and as president in August 2008, ushering in an incoherent civilian government. In December 2007, the world got a good glimpse of just how dangerous the murky ISI-jihadist nexus had become when the political chaos in Islamabad was exploited with a bold suicide attack that killed Pakistani opposition leader Benazir Bhutto. Historically, the Pakistani military had been relied on to step in and restore order in such a crisis, but the military itself was coming undone as the split widened between those willing and those unwilling to work with the jihadists. Now, in the final days of 2008, the jihadist insurgency is raging on both sides of the Afghan-Pakistani border, with the country’s only guarantor against collapse — the military — in disarray.

Kashmiri Groups Cut Loose

India has watched warily as Pakistan’s jihadist problems have intensified over the past several years. Of utmost concern to New Delhi have been the scores of Kashmiri Islamist militants who had been operating on the ISI’s payroll — and who had a score to settle with India. As Pakistan became more and more distracted with battling jihadists within its own borders, the Kashmiri Islamist militant groups began loosening their bonds with the Pakistani state. Groups such as LeT and JeM, who had been banned and forced underground following the 2001 Indian parliament attack, started spreading their tentacles into major Indian cities. These groups retained links to the ISI, but the Pakistani military had bigger issues to deal with and needed to distance itself from the Kashmiri Islamists. If these groups were to continue to carry out operations, Pakistan needed some plausible deniability.

Over the past several years, Kashmiri Islamist militant groups have carried out sporadic attacks throughout India. The attacks have involved commercial-grade explosives rather than the military-grade RDX that is traditionally used in Pakistani-sponsored attacks, another sign that the groups are distancing themselves from Pakistan. The attacks, mostly against crowded transportation hubs, religious sites (both Hindu and Muslim) and marketplaces, were designed to ignite riots between Hindus and Muslims that would compel the Indian government to crack down and revive the Kashmir cause.

However, India’s Hindu nationalist and largely moderate Muslim communities failed to take the bait. It was only a matter of time before these militant groups began seeking out more strategic targets that would affect India’s economic lifelines and ignite a crisis between India and Pakistan. As these groups became increasingly autonomous, they also started linking up with members of al Qaeda’s transnational jihadist movement, who had a keen interest in stirring up conflict between India and Pakistan to divert the attention of Pakistani forces to the east.

By November 2008, this confluence of forces — Pakistan’s raging jihadist insurgency, the devolution of the ISI and the increasing autonomy of the Kashmiri groups — created the conditions for one of the largest militant attacks in history to hit Mumbai, highlighting the extent to which Pakistan has lost control over its Islamist militant proxy project.