The John F. Kennedy Memorial High School Mustangs compete in the Greater Middlesex Conference, which includes public and private high schools located in the greater Middlesex County area, operating under the supervision of the New Jersey State Interscholastic Athletic Association (NJSIAA). With 1,008 students in grades 10-12, the school was classified by the NJSIAA for the 2019–20 school year as Group III for most athletic competition purposes, which included schools with an enrollment of 761 to 1,058 students in that grade range. The school was classified by the NJSIAA as Group IV North for football for 2018–2020.