The data in this project are associated with the development of a masters thesis project and a manuscript. The project evaluates changes in hydrology and effects on CO2 exchange in three ecosystems in the Everglades: a freshwater marl prairie, brackish ecotone, and scrub mangrove. All data was derived from publicly available monitoring sources from the South Florida Water Management District database, Florida Coastal Everglades LTER database, and AmeriFlux. We evaluated long term changes (>25 years) in salinity and water level in coastal and inland locations. Long term data was not available for the ecosystem sites that had CO2 exchange data, so we used data from nearby stations. We then compared water level and surface salinity relationships in the three ecosystems to understand how water level affects salinity. Lastly, we developed light and temperature response curves under different water level conditions to understand how submergence of vegetation affects ecosystem scale function and CO2 dynamics.