Habitat degradation and invasive species are major threats to North American freshwater ecosystems. Many freshwater mussel (Order: Unionida) species exist in isolated populations, leaving them vulnerable to disturbances and invasive species. Using a standardized habitat survey protocol, I: 1) determined habitat similarity between sites in South Carolina and Georgia to sites containing Brook Floater (Alasmidonta varicosa) in other watersheds across their range, using principal component analysis to inform potential reintroduction sites; and 2) determined habitat and landscape variables linked to presence of invasive Corbicula fluminea. Results identified possible reintroduction sites of Brook Floater and found that landscape variables, particularly upstream reservoirs and developed land density, were associated more with C. fluminea site presence than site-specific habitat variables. By identifying habitat capable of supporting the reintroduction of mussel populations and identifying habitat variables that aquatic invasive species may exploit in their expansion, this work can improve decisions for freshwater mussel conservation.