Border Control and Contractor Accountability Act of 2009

Border Control and Contractor Accountability Act of 2009 - Requires a federal contractor who employs directly or through a subcontractor an alien who is not authorized to work to: (1) be debarred or suspended from federal contracting for three years; and (2) have the contract terminated unless the contractor or subcontractor agrees to terminate the employment of any such alien.

Directs the Secretary of Homeland Security to establish the position of Small Business Administration Liaison within United States Immigration and Customs Enforcement to ensure that the Small Business Administration (SBA) does not make or guarantee a loan to an alien who is unlawfully present in the United States.

Authorizes the Secretary to contract with private entities for domestic transport from Border Patrol custody to detention facilities of aliens apprehended at or along U.S. international land or maritime borders.

Prohibits the Department of Homeland Security (DHS) from contracting with a company that employs individuals unless the company agrees to participate in the basic pilot employment confirmation program (under the Illegal Immigration Reform and Immigrant Responsibility Act of 1996).