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Abstract Tidal salt marshes are important ecosystems in the global carbon cycle. Understanding their net carbon exchange with the atmosphere is required to accurately estimate their net ecosystem carbon budget (NECB). In this study, we present the interannual net ecosystem exchange (NEE) of CO₂derived from eddy covariance (EC) for aSpartina alterniflorasalt marsh. We found interannual NEE could vary up to 3‐fold and range from −58.5 ± 11.3 to −222.9 ± 12.4 g C m⁻² year⁻¹in 2016 and 2020, respectively. Further, we found that atmospheric CO₂fluxes were spatially dependent and varied across short distances. High biomass regions along tidal creek and estuary edges had up to 2‐fold higher annual NEE than lower biomass marsh interiors. In addition to the spatial variation of NEE, regions of the marsh represented by distinct canopy zonation responded to environmental drivers differently. Low elevation edges (with taller canopies) had a higher correlation with river discharge (R² = 0.61), the main freshwater input into the system, while marsh interiors (with short canopies) were better correlated with in situ precipitation (R² = 0.53). Lastly, we extrapolated interannual NEE to the wider marsh system, demonstrating the potential underestimation of annual NEE when not considering spatially explicit rates of NEE. Our work provides a basis for further research to understand the temporal and spatial dynamics of productivity in coastal wetlands, ecosystems which are at the forefront of experiencing climate change induced variability in precipitation, temperature, and sea level rise that have the potential to alter ecosystem productivity.