Environmental degradation of the Chesapeake Bay, the largest estuary in the U.S., has been linked to rapid development in the watershed and resultant nutrient loading. Consequently, the federal government developed restoration plans to mitigate the effects of eutrophication and improve essential ecosystem functions, though few restoration plans have considered the interactive effects of climate change. Climate change and other anthropogenic drivers are causing changes in ecosystem structure and function, thereby impacting the beneficial services ecosystems provide. A reduced complexity ecosystem model was applied to the Lynnhaven River watershed, a sub-estuary of the Chesapeake Bay, to evaluate the sustainability of ecosystem services provided by S. alterniflora, Zostera marina, Ruppia maritima, and Crassostrea virginica reef habitat, under existing conditions as well as predicted climate warming and sea level rise scenarios for the region. The major findings indicate that climate change will affect the capacity of restored systems to provide ecosystem services in the Lynnhaven River.