All students from years one to three participate in two hours of physical activity per week as stipulated by the Department of Education. This is achieved through a specialised physical education program combined with daily fitness. The Sports and Fundamental Skills program concentrates on playground games, circuit work, field hockey, basketball, athletics, and dance. At the start of the year, students are explicitly taught playground games to support play and social skills development. Physical education programs assist students to individually develop their overall body strength, balance, coordination and self-confidence.

The Fremantle LDC promotes a healthy lifestyle by modelling and reinforcing personal care, healthy eating, safe play, and sun awareness. The school is a registered Crunch & Sip school, and all students participate in a daily crunch and sip.