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Land-use change alters catchment hydrology by influencing the quality and quantity of partitioned rainfall. We compared rainfall partitioning (throughfall, stemflow and interception) and nutrient concentrations in rainfall, throughfall and stemflow in three land-use types [primary forest (PF), secondary forest (SF) and agriculture (A)] in Panama. Measurements of throughfall were highly variable which may have masked seasonal and land use differences but it was clear that throughfall at agricultural sites made up a larger proportion of gross precipitation than at forest sites. Of incident precipitation, 94% became throughfall in agriculture sites while 83 and 81% of gross precipitation became throughfall in PF and SF, respectively. The size of the precipitation event was the main driver of variation in throughfall and stemflow. Consistent patterns in nutrient cycling were also difficult to identify. Vegetation has a vital role in delivering nutrients as throughfall deposition of K was often larger than precipitation deposition. A canopy budget model indicated that canopy exchange was often more dominant than dry deposition. Throughfall was generally enriched with nutrients, especially K and Mg, with enrichment factors of up to 17 and 5 for K and Mg, respectively, in PF. In contrast, Ca was sometimes taken up by the canopy. Values of nutrient deposition were high (with up to 15, 3, 30 and 15 kg ha−1 month−1 in stand deposition of Ca, Mg, K and Na, respectively in PF), possibly due to the slash-and-burn agricultural practices in the area or marine inputs. Throughfall and stemflow are vital sources of nutrients in these ecosystems.