The Pentagon is muscling in everywhere. It's time to stop the mission creep.

We no longer have a civilian-led government. It is hard for a lifelong Republican and son of a retired Air Force colonel to say this, but the most unnerving legacy of the Bush administration is the encroachment of the Department of Defense into a striking number of aspects of civilian government. Our Constitution is at risk.

President-elect Barack Obama's selections of James L. Jones, a retired four-star Marine general, to be his national security adviser and, it appears, retired Navy Adm. Dennis C. Blair to be his director of national intelligence present the incoming administration with an important opportunity -- and a major risk. These appointments could pave the way for these respected military officers to reverse the current trend of Pentagon encroachment upon civilian government functions, or they could complete the silent military coup d'etat that has been steadily gaining ground below the radar screen of most Americans and the media.

While serving the State Department in several senior capacities over the past four years, I witnessed firsthand the quiet, de facto military takeover of much of the U.S. government. The first assault on civilian government occurred in faraway places -- Iraq and Afghanistan -- and was, in theory, justified by the exigencies of war.

The White House, which basically let the Defense Department call the budgetary shots, vastly underfunded efforts by the State Department, the Justice Department and the U.S. Agency for International Development to train civilian police forces, build functioning judicial systems and provide basic development services to those war-torn countries. For example, after the 2003 invasion of Iraq, the Justice Department and the State Department said that they needed at least 6,000 police trainers in the country. Pentagon officials told some of my former staffers that they doubted so many would be needed. The civilians' recommendation "was quickly reduced to 1,500 [trainers] by powers-that-be above our pay grade," Gerald F. Burke, a retired major in the Massachusetts State Police who trained Iraqi cops from 2003 to 2006, told Congress last April. Just a few hundred trainers ultimately wound up being fielded, according to Burke's testimony.

Until this year, the State Department received an average of about $40 million a year for rule-of-law programs in Afghanistan, according to the department's Bureau of International Narcotics and Law Enforcement Affairs -- in stark contrast to the billions that the Pentagon got to train the Afghan army. Under then-Defense Secretary Donald H. Rumsfeld, the Defense Department failed to provide even basic security for the meager force of civilian police mentors, rule-of-law advisers and aid workers from other U.S. agencies operating in Afghanistan and Iraq, driving policymakers to turn to such contracting firms as Blackwater Worldwide. After having set the rest of the U.S. government up for failure, military authorities then declared that the other agencies' unsuccessful police-training efforts required military leadership and took them over -- after brutal interagency battles at the White House.

The result of letting the Pentagon take such thorough charge of the programs to create local police forces is that these units, in both Iraq and Afghanistan, have been unnecessarily militarized -- producing police officers who look more like militia members than ordinary beat cops. These forces now risk becoming paramilitary groups, well armed with U.S. equipment, that could run roughshod over Iraq and Afghanistan's nascent democracies once we leave.

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