| Indian Slough | Skagit, WA | 6.8 miles | SE |
| Joe Leary Slough | Skagit, WA | 7.2 miles | NE |
| Samish River | Skagit, WA | 9.1 miles | NE |
| Edison Slough | Skagit, WA | 9.6 miles | NE |
| North Fork Skagit River | Skagit, WA | 10 miles | SE |
| Harrison Creek | Skagit, WA | 12.1 miles | NE |
| Colony Creek | Skagit, WA | 12.1 miles | NE |
| Whitehall Creek | Skagit, WA | 12.1 miles | NE |
| Oyster Creek | Skagit, WA | 12.2 miles | NE |
| Gages Slough | Skagit, WA | 12.4 miles | SE |
| Thomas Creek | Skagit, WA | 13 miles | NE |
| Hall Slough | Skagit, WA | 13.1 miles | SE |
| Cascade Creek | San Juan, WA | 13.3 miles | NW |
| Britt Slough | Skagit, WA | 13.7 miles | SE |
| Skagit River | Skagit, WA | 13.7 miles | SE |
| Friday Creek | Skagit, WA | 14 miles | NE |
| Browns Slough | Skagit, WA | 14.3 miles | SE |
| Wildes Creek | Skagit, WA | 14.5 miles | NE |
| Paul Creek | San Juan, WA | 14.6 miles | NW |
| Nookachamps Creek | Skagit, WA | 15.1 miles | SE |
| Brickyard Creek | Skagit, WA | 15.2 miles | NE |
| Dry Slough | Skagit, WA | 15.4 miles | SE |
| Butler Creek | Skagit, WA | 15.5 miles | NE |
| Silver Creek | Skagit, WA | 15.6 miles | NE |
| Cold Creek | San Juan, WA | 15.7 miles | NW |
| Chuckanut Creek | Whatcom, WA | 15.8 miles | NE |
| Moran Creek | San Juan, WA | 15.8 miles | NW |
| Wiley Slough | Skagit, WA | 15.9 miles | SE |
| Bear Creek | Skagit, WA | 16 miles | NE |
| East Fork Nookachamps Creek | Skagit, WA | 16.1 miles | SE |
| Swede Creek | Skagit, WA | 16.1 miles | NE |
| Willard Creek | Skagit, WA | 16.1 miles | NE |
| South Fork Skagit River | Skagit, WA | 16.2 miles | SE |
| Freshwater Slough | Skagit, WA | 16.2 miles | SE |
| Carpenter Creek | Skagit, WA | 16.3 miles | SE |
| Sandy Creek | Skagit, WA | 16.5 miles | SE |
| Deepwater Slough | Skagit, WA | 16.7 miles | SE |
| Barnes Creek | Whatcom, WA | 16.8 miles | NE |
| Johnson Creek | Skagit, WA | 16.8 miles | SE |
| Parson Creek | Skagit, WA | 16.9 miles | NE |
| Crooked Slough | Skagit, WA | 16.9 miles | SE |
| Padden Creek | Whatcom, WA | 17 miles | NE |
| Bulson Creek | Skagit, WA | 17.1 miles | SE |
| Boom Slough | Skagit, WA | 17.1 miles | SE |
| Dry Creek | Skagit, WA | 17.2 miles | NE |
| Brandstedt Slough | Skagit, WA | 17.3 miles | SE |
| Old River | Skagit, WA | 17.3 miles | SE |
| Isohis Slough | Snohomish, WA | 17.5 miles | SE |
| Fisher Creek | Skagit, WA | 17.6 miles | SE |
| Turner Creek | Skagit, WA | 17.7 miles | SE |
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