East Brunswick is a member of the New Jersey Interscholastic Athletic Association, the state governing agency, and the Greater Middlesex Conference, a 32-member organization.

The athletic program begins in the eighth grade with soccer, cross country, football, wrestling, basketball, softball and track. In ninth grade, the same teams continue, and cheerleading, field hockey and baseball are added. Although ninth graders attend junior high school, they are eligible to participate on high school teams.

East Brunswick High School's athletic program is among the most comprehensive in the state. Fall teams are soccer, football, cross country, girls gymnastics, field hockey, girls volleyball, cheerleading and girls tennis. The winter program includes basketball, wrestling, winter track, cheerleading, swimming and bowling. Spring teams are baseball, lacrosse, softball, golf, track, boys volleyball and boys tennis.

In total, there are 30 varsity, 15 separate junior varsity, 12 ninth-grade, and 11 eighth-grade teams.