| Barr Creek-Frontal Lake Michigan |
| Batavia Creek-North Branch Milwaukee River |
| Cedar Creek |
| City of Belgium |
| City of Butler-Menomonee River |
| Fox Point-Frontal Lake Michigan |
| Jackson Marsh State Wildlife Area-Cedar Creek |
| Little Menomonee River |
| Lizard Mound State Park |
| Lower Onion River |
| Middle Onion River |
| Milwaukee River |
| Mink Creek |
| North Branch Milwaukee River |
| Pigeon Creek-Milwaukee River |
| Sauk Creek |
| Silver Creek |
| Stony Creek |
| Sucker Creek-Frontal Lake Michigan |
| Town of Freedonia-Milwaukee River |
| Town of Richfield |
| Village of Grafton-Milwaukee River |
| Village of Menomonee Falls-Menomonee River |
| Village of Newburg-Milwaukee River |
| Village of Sussex-Fox River |
