| School House Branch | rises in W Watauga County and flows SW into Watauga River. |
| Schoolhouse Branch | rises in central Cherokee County and flows SE into Marble Creek. |
| Schoolhouse Branch | rises in NE Cherokee County and flows SE into Junaluska Creek. |
| Schoolhouse Branch | rises in S Haywood County and flows SW into Little East Fork Pigeon River. |
| Schoolhouse Branch | rises in central Pitt County and flows NE into Tar River. |
| Schoolhouse Flats | E Haywood County on Glade Mountain. |
| Schoolpath Branch | rises in S central Transylvania County and flows NE into West Fork French Broad River. |
| Schooner Creek | rises in SE Beaufort County and flows N into South Creek. |
| Schooners Bay | See Spooners Bay. |
| Schuler Cove | See Jack Cove. |