ISLAMABAD, Pakistan — When news of the two latest drone strikes emerged from Pakistan’s tribal belt in early February, it seemed to be business as usual by the C.I.A.

Local and international media reports, citing unnamed Pakistani officials, carried typical details: swarms of American drones had swooped into remote areas, killing up to nine people, including two senior commanders of Al Qaeda.

In Islamabad, Pakistan’s Foreign Ministry lodged an official protest with the American Embassy.

Yet there was one problem, according to three American officials with knowledge of the program: The United States did not carry out those attacks.

“They were not ours,” said one of the officials, speaking on the condition of anonymity because of the drone program’s secrecy. “We haven’t had any kinetic activity since January.”