Operation Apollo was created to support the United States invasion of Afghanistan. A naval task group was formed, which "Iroquois" was made flagship of on 17 October. The task group was composed of "Iroquois", the auxiliary vessel and frigates and . All the ships with the exception of "Halifax" sailed from Halifax on 24 October. "Iroquois", "Charlottetown" and "Preserver" arrived in theatre on 20 November. "Iroquois" was later incorporated into a US amphibious ready group for escort duties for United States Marine Corps transports positioned close to Pakistan. The destroyer returned to Halifax on 27 April 2002.