Understanding the role of estuarine-carbon fluxes is essential to improve estimates of the global carbon budget. Dissolved organic matter (DOM) plays an important role in aquatic carbon cycling. The chromophoric fraction of DOM (CDOM) can be readily detected via in situ and remotely-sensed optical measurements. DOM properties, including CDOM absorption coefficient at 412 nm (ag412) and dissolved organic carbon (DOC) concentrations were examined in Apalachicola Bay, a national estuarine research reserve located in the northeast Gulf of Mexico, using in situ and satellite observations during the spring and fall of 2015. Synoptic and accurate representation of estuarine-scale processes, using satellite ocean color imagery, necessitates the removal of atmospheric contribution (~ 90%) to signals received by satellite sensors to successfully link to in situ observations. Three atmospheric correction schemes (e.g., Standard NIR correction, Iterative NIR correction, and SWIR correction) were tested first to find a suitable correction scheme for the VIIRS imagery in Apalachicola Bay, a low to moderately- turbid system Apalachicola Bay. The iterative NIR correction performed well, and validation showed high correlation (R2 = 0.95, N = 25) against in situ light measurements. A VIIRS-based CDOM algorithm was developed (R2 = 0.87, N = 9) and validated (R2 = 0.76, N = 20, RMSE = 0.29 m-1) against in situ observations. Subsequently, ag412 was used as a proxy of DOC in March (DOC = 1.08 + 0.94 × ag412, R2 = 0.88, N = 13) and in November (DOC = 1.61 + 1.33 × ag412, R2 = 0.83, N = 24) to derive DOC maps that provided synoptic views of DOC distribution, sources, and their transport to the coastal waters during the wet and dry seasons. The estimated DOC stocks were ~ 3.71 × 106 kg C in March and ~ 4.07 × 106 kg C in November over an area of ~ 560 km2. Volume flux (out of the bay) almost doubled for March 24 (735 m3 s-1) relative to November 4 (378 m3 s-1). However, estimates of DOC export fluxes exported out of the bay from model-derived currents and satellite-derived DOC were only marginally greater in March (0.163 × 106 kg C d-1) than in November (0.124 × 106 kg C d-1) and reflected greater DOC stocks in the fall. The combination of satellite-, field-, and model-based observations revealed the strong linkages between the Apalachicola River plume, a major source of DOM, and the overall hydrodynamic forcing that controlled distributions of CDOM abundance, DOC concentration, stocks, and fluxes in the bay.