Sakhr al-Taifi, also known as Mushtaq and Nasim, and another al Qaeda militant died on Sunday in an airstrike in the eastern Kunar province. A follow-on assessment of the area determined that no civilians were harmed.
NATO says al-Taifi was responsible for commanding foreign insurgents in Afghanistan and directing attacks against coalition and Afghan forces.
Al-Taifi also supplied weapons and equipment to eastern insurgents and transported fighters into Afghanistan.
Many senior al Qaeda commanders have died in U.S. drone attacks in Pakistan's northwest tribal region, and Osama bin Laden was killed by U.S. commandos in the Pakistani town of Abbottabad last May.
The Associated Press contributed to this report.