We conducted a sensitivity test of Joint UK Land Environment Simulator (JULES), in which the influence of biophysical parameters on the simulation of gross primary productivity (GPP) and ecosystem respiration (RE) was investigated for two typical ecosystems in Korea. For this test, we employed the whole-year observation of eddy-covariance fluxes measured in 2006 at two KoFlux sites: (1) a deciduous forest in complex terrain in Gwangneung and (2) a farmland with heterogeneous mosaic patches in Haenam. Our analysis showed that the simulated GPP was most sensitive to the maximum rate of RuBP carboxylation and leaf nitrogen concentration for both ecosystems. RE was sensitive to wood biomass parameter for the deciduous forest in Gwangneung. For the mixed farmland in Haenam, however, RE was most sensitive to the maximum rate of RuBP carboxylation and leaf nitrogen concentration like the simulated GPP. For both sites, the JULES model overestimated both GPP and RE when the default values of input parameters were adopted. Considering the fact that the leaf nitrogen concentration observed at the deciduous forest site was only about 60% of its default value, the significant portion of the model's overestimation can be attributed to such a discrepancy in the input parameters. Our finding demonstrates that the abovementioned key biophysical parameters of the two ecosystems should be evaluated carefully prior to any simulation and interpretation of ecosystem carbon exchange in Korea.