In-water recreation at Three Sisters Springs is accessible by launching a vessel from any of the public boat ramps or kayak launches on Kings Bay and navigating to the spring-run for Three Sisters. Public kayak launches can be found at:
- Hunter Springs Park, 104 NE 1st Ave, Crystal River
- King's Bay Park, 268 NW 3rd St, Crystal River
Visitors must arrive by paddle craft or motorized vessel to get to the spring run at Three Sisters Springs; however, motorized vessels are not permitted inside the Springs. Paddle-craft are not permitted inside from November 15 - March 31.