How to effectively combine remote sensing data with the eddy covariance (EC) technique to accurately quantify gross primary production (GPP) in coastal wetlands has been a challenge and is also important and necessary for carbon (C) budgets assessment and climate change studies at larger scales. In this study, a satellite-based Vegetation Photosynthesis Model (VPM) combined with EC measurement and Moderate Resolution Imaging Spectroradiometer (MODIS) data was used to evaluate the phenological characteristics and the biophysical performance of MODIS-based vegetation indices (VIs) and the feasibility of the model for simulating GPP of coastal wetland ecosystems. The results showed that greenness-related and water-related VIs can better identify the green-up and the senescence phases of coastal wetland vegetation, corresponds well with the C uptake period and the phenological patterns that were delineated by GPP from EC tower (GPP_EC). Temperature can explain most of the seasonal variation in VIs and GPP_EC fluxes. Both enhanced vegetation index (EVI) and water-sensitive land surface water index (LSWI) have a higher predictive power for simulating GPP in this coastal wetland. The comparisons between modeled GPP (GPP_VPM) and GPP_EC indicated that VPM model can commendably simulate the trajectories of the seasonal dynamics of GPP_EC fluxes in terms of patterns and magnitudes, explaining about 85% of GPP_EC changes over the study years (p < 0.0001). The results also demonstrate the potential of satellite-driven VPM model for modeling C uptake at large spatial and temporal scales in coastal wetlands, which can provide valuable production data for the assessment of global wetland C sink/source.