In this paper we present results from the measurement of radiation and energy flux exchanges using the eddy covariance method over Heron Reef, a 27 km2 lagoonal platform reef on the Southern Great Barrier Reef under monsoon conditions. Eddy covariance systems were mounted on pontoons and anchored over the reef ensuring a constant measurement height of 2.2 m above the water surface. Results show mean daily latent heat flux over the reef flat ranged from 52 to 77% of net radiation, while sensible heat flux ranged from 4 to 12% of net radiation with remaining energy going into heating of the reef and overlying water. By comparison, over the deep lagoon, the sum of convective fluxes exceeded mean daily net radiation resulting in a net cooling of the water. The drag coefficient across Heron Reef ranged from 1.5 x 10-3 to 2.3 x 10-3. These results highlight the spatial variability in energy exchanges across coral reefs and their very different energy balance compared to the open ocean.