Accurate monitoring of forest carbon flux and its long-term response to meteorological factors is important. To accomplish this task, the model parameters need to be optimized with respect to in situ observations. In the present study, the extended Fourier amplitude sensitivity test (eFAST) method was used to optimize the sensitive ecophysiological parameters of the Biome BioGeochemical Cycles model. The model simulation was integrated from 2010 to 2020. The results showed that using the eFAST method quantitatively improved the model output. For instance, the R2 increased from 0.53 to 0.72. Moreover, the root-mean-square error was reduced from 1.62 to 1.14 gC·m−2·d−1. In addition, it was reported that the carbon flux outputs of the model were highly sensitive to various parameters, such as the canopy average specific leaf area and canopy light extinction coefficient. Moreover, long-term meteorological factor analysis showed that rainfall dominated the trend of gross primary production (GPP) of the study area, while extreme temperatures restricted the GPP. In conclusion, the eFAST method can be used in future studies. Furthermore, eFAST could be applied to other biomes in response to different climatic conditions.