The squadron achieved initial operational capability in F-16CJs in 1996. The squadron's tail code was simultaneously changed from "MJ" to "WW" in recognition of the wing's Wild Weasel heritage. On 8 July of that year, the squadron became the first Pacific Air Forces F-16 unit to deploy in support of Operation Southern Watch, enforcing the no-fly zone over southern Iraq, as a result of a policy change allowing all units the opportunity to deploy. During Operation Southern Watch, the squadron flew its first combat missions since the 1975 Mayaguez incident. Since 1996, the 13th FS has deployed to Afghanistan, Iraq and Jordan ten times, most recently in 2014 to Jordan where the Panthers opened the US air campaign against the Islamic State. Eventually this effort would become known as Operation Inherent Resolve (OIR).