He's worried about the fate of a missing bit of U.S. ordnance (bringing up the spectre of the tons of ordnance the U.S. left for the insurgents in Iraq--but Iraq is like the love that dare not speak its name in this film), but his superiors are only interested in him assassinating the reform-minded Arab so that the idiotic, 8th-century Arabs can continue to be controlled by rich Texans with family connections (played again as in Silver City by Chris Cooper).
Attorney General Donald Farish (David Clennon, "Silver City") and Bob's retired CIA buddy Stan Goff (William Hurt, "A History of Violence").