This dataset consists of measurements of the exchange of energy and mass between the surface and the atmospheric boundary-layer in tropical woodland using eddy covariance techniques. The site was situated within a wetland that flooded seasonally. The principle vegetation was Oryza rufipogon, Pseudoraphis spinescens and Eleocharis dulcis. The elevation was approximately 4m, with a neighbouring Bureau of Meteorology station recording 1411mm mean annual precipitation.Maximum temperatures ranged from 31.3°C (in June and July) to 35.6°C (in October), while minimum temperatures ranged from 14.9°C (in July) to 23.9°C (in December and February). Maximum temperatures varied on a seasonal basis by approximately 4.3°C and minimum temperatures by 9.0°C. The instrument mast was 15m tall. Heat, water vapour and carbon dioxide measurements are taken using the open-path eddy flux technique. Temperature, humidity, wind speed, wind direction, rainfall, incoming and reflected shortwave radiation and net radiation were measured above the canopy. Soil heat fluxes were measured and soil moisture content was gathered using time domain reflectometry. Ancillary measurements taken at the site include LAI, leaf-scale physiological properties (gas exchange, leaf isotope ratios, N and chlorophyll concentrations), vegetation optical properties and soil physical properties. Airborne based remote sensing (Lidar and hyperspectral measurements) was carried out across the transect in September 2008. This data is also available at http://data.ozflux.org.au .