Tropical forests exchange large amounts of water and energy with the atmosphere and are important in controlling regional and global climate; however, climate and evaportranspiration (E) vary significantly across multiple time scales. To better understand temporal patterns in E and climate, we measured the energy balance and meteorology of a semi-deciduous forest in the rainforest-savanna ecotone of northern Mato Grosso, Brazil, over a 7-year period and analyzed regional climate patterns over a 16-year period. Spectral analysis revealed that E and local climate exhibited consistent cycles over annual, seasonal, and weekly time scales. Annual and seasonal cycles were also apparent in the regional monthly rainfall and humidity time series, and a cycle on the order of 3-5.5 years was also apparent in the regional air temperature time series, which is coincident with the average return interval of El Niño. Annual rates of E were significantly affected by the 2002 El Niño. Prior to this event, annual E was on average 1,011 mm/year and accounted for 52% of the annual rainfall, while after, annual E was 931 mm/year and accounted for 42% of the annual rainfall. Our data also suggest that E declined significantly over the 7-year study period while air temperature significantly increased, which was coincident with a long-term, regional warming and drying trend. These results suggest that drought and warming induced by El Niño and/or climate change cause declines in E for semi-deciduous forests of the southeast Amazon Basin.