| Ann River | 16.8 | 29 |
| Arrowhead Creek | 19 | 19 |
| Artichoke River | 13.5 | 14 |
| Ashley Creek | 28.3 | 28 |
| Ash River | 33.9 | 51 |
| Badger Creek | 15.7 | 34 |
| Baptism River | 8.8 | 58 |
| Baptism River - East Branch | 17.8 | 18 |
| Baptism River - West Branch | 14.9 | 31 |
| Barber Creek | 14.7 | 15 |
| Battle Brook | 22.3 | 22 |
| Battle River | 17.9 | 72 |
| Battle River - North Branch | 13.7 | 14 |
| Battle River - South Branch | 40.7 | 41 |
| Baudette River | 20.3 | 20 |
| Bear Creek (Root River - Middle Branch tributary) | 15.6 | 16 |
| Bear Creek (Root River - Middle Branch tributary) | 28.4 | 28 |
| Bear Creek (St. Croix River tributary) | 33.8 | 34 |
| Bear Creek (Zumbro River - South Fork tributary) | 19.3 | 19 |
| Bear River (Big Fork River tributary) | 34.5 | 35 |
| Bear River (Leech Lake River tributary) | 12 | 12 |
| Bear River (Sturgeon River (Little Fork River tributary)) | 40.3 | 40 |
| Beaver Brook | 41.5 | 42 |
| Beaver Creek (Des Moines River tributary) | 57.7 | 58 |
| Beaver Creek - East Fork (Minnesota River tributary) | 27.3 | 27 |
| Beaver Creek (Minnesota River tributary) | 13.3 | 70 |
| Beaver Creek (Split Rock Creek tributary) | 38.6 | 54 |
| Beaver Creek - West Fork (Minnesota River tributary) | 29.4 | 29 |
| Beaver River (Cloquet River tributary) | 16.3 | 16 |
| Beaver River - East Branch (Lake Superior tributary) | 21.9 | 22 |
| Beaver River (Lake Superior tributary) | 23.7 | 46 |
| Belle Creek | 28.6 | 29 |
| Bevens Creek | 30.8 | 49 |
| Big Fork River | 170.6 | 508 |
| Big Rock Creek | 18.6 | 19 |
| Big Sucker Creek | 18.2 | 18 |
| Big Swamp Creek | 15.5 | 16 |
| Birch Creek | 17.3 | 17 |
| Blackduck River | 51.5 | 175 |
| Black Duck River | 16.9 | 17 |
| Blackhoof River | 26.3 | 26 |
| Black River (Rainy River tributary) | 48.4 | 86 |
| Black River (Red Lake River tributary) | 33.8 | 34 |
| Black River - South Fork (Rainy River tributary) | 13.2 | 13 |
| Black River - West Fork (Rainy River tributary) | 24.7 | 25 |
| Blood Run | 5.8 | 6 |
| Blueberry River | 23.1 | 49 |
| Blue Earth River | 108.5 | 1,158 |
| Blue Earth River - East Branch | 59.2 | 75 |
| Blue Earth River - Middle Branch | 8.3 | 8 |
| Blue Earth River - West Branch | 10.6 | 11 |
| Bluff Creek | 17.8 | 18 |
| Bogus Brook | 18.6 | 19 |
| Boiling Spring Creek | 15.7 | 16 |
| Bois de Sioux River | 33.5 | 236 |
| Bowstring River | 42.1 | 78 |
| Boy River | 67.7 | 80 |
| Brule River | 40.6 | 41 |
| Buckman Creek | 17.8 | 18 |
| Buffalo Creek | 86.4 | 86 |
| Buffalo River | 142.1 | 332 |
| Buffalo River - South Branch | 57.2 | 173 |
| Bug Creek | 26.9 | 27 |
| Bull Run Creek | 18.9 | 19 |
| Burnham Creek | 36.6 | 37 |
| Butterfield Creek | 25.1 | 25 |
| Caldwell Brook | 49.7 | 50 |
| Canby Creek | 24.6 | 25 |
| Canfield Creek | 20 | 20 |
| Cannon River | 118.7 | 354 |
| Canoe Creek | 0 | 0 |
| Caribou River | 15 | 15 |
| Carver Creek | 31.5 | 32 |
| Cascade Creek | 20.8 | 21 |
| Cascade River | 19.2 | 19 |
| Cat River | 16.3 | 16 |
| Cedar Creek (Elm Creek (Blue Earth River tributary)) | 22.1 | 22 |
| Cedar Creek (Rum River tributary) | 17.9 | 18 |
| Cedar Creek (Rum River tributary) | 28.3 | 28 |
| Cedar River | 54 | 214 |
| Center Creek | 33.7 | 55 |
| Champepadan Creek | 37.9 | 38 |
| Chanarambie Creek | 28.8 | 29 |
| Chelsey Brook | 17.2 | 17 |
| Chetomba Creek | 31.2 | 31 |
| Chippewa River | 153.5 | 363 |
| Chippewa River - East Branch | 67.6 | 110 |
| Chub Creek | 24.8 | 25 |
| Clearwater River (Mississippi River tributary) | 43.4 | 43 |
| Clearwater River (Red Lake River tributary) | 148.7 | 390 |
| Cloquet River | 105.3 | 192 |
| Cloquet River - West Branch | 21 | 21 |
| Coal Mine Creek | 18.8 | 19 |
| Cobb Creek | 1.9 | 2 |
| Cobb River | 85.3 | 140 |
| Coon Creek (Big Fork River tributary) | 18.3 | 18 |
| Coon Creek (Mississippi River tributary) | 24 | 24 |
| Coon Creek (Redwood River tributary) | 42.7 | 43 |
| Cottonwood River | 150.7 | 436 |
| Crane Creek | 16.9 | 17 |
| Credit River | 21.8 | 22 |
| Crooked Creek | 8.7 | 48 |
| Crooked Creek - East Fork | 21 | 21 |
| Crooked Creek - West Fork | 18.6 | 19 |
| Cross River (Lake Superior tributary) | 23.6 | 24 |
| Cross River (Little Fork River tributary) | 20 | 20 |
| Crow Creek (Lost Creek (Lac qui Parle River - West Branch tributary)) | 10.5 | 11 |
| Crown Creek | 16.3 | 16 |
| Crow River | 24.8 | 506 |
| Crow River - Middle Fork | 45.1 | 45 |
| Crow River - North Fork | 160.9 | 260 |
| Crow River - South Fork | 116.3 | 222 |
| Crow Wing River | 115.3 | 859 |
| Daggett Brook | 23.2 | 23 |
| Dark River | 19.2 | 19 |
| Darrigans Creek | 16.4 | 16 |
| Day Brook | 24.7 | 25 |
| Dead Moose River | 15.1 | 15 |
| Dead River | 14.8 | 15 |
| Deer Creek (Cedar River tributary) | 8.3 | 8 |
| Deer Creek (Root River - Middle Branch tributary) | 39.1 | 61 |
| Deerhorn Creek | 21.7 | 22 |
| Deer River | 18.7 | 19 |
| Dempsey Creek | 15.9 | 16 |
| Des Moines River | 121.2 | 522 |
| Des Moines River - East Fork | 169.5 | 170 |
| Dinner Creek | 25.4 | 25 |
| Dobbins Creek | 18.1 | 18 |
| Dodge Center Creek | 31 | 31 |
| Dry Weather Creek | 17.4 | 17 |
| Dumbbell River | 18.7 | 19 |
| Dutch Charley Creek | 48 | 92 |
| Eagle Creek | 27.1 | 27 |
| East Indian Creek | 16.3 | 16 |
| East River | 21.6 | 22 |
| East Savanna River | 15.5 | 16 |
| East Split Rock River | 14.1 | 14 |
| East Swan River | 24.3 | 97 |
| East Two River | 26.1 | 26 |
| Egg River | 17 | 17 |
| Eightmile Creek | 18.9 | 19 |
| Elk Creek (Okabena Creek tributary) | 21.3 | 21 |
| Elk Creek (Rock River tributary) | 29.4 | 29 |
| Elk River | 84 | 241 |
| Elm Creek (Blue Earth River tributary) | 89.5 | 129 |
| Elm Creek (Mississippi River tributary) | 22.3 | 39 |
| Elm Creek - South Fork (Blue Earth River tributary) | 17.7 | 18 |
| Embarrass River | 50.5 | 51 |
| Estes Brook | 20.5 | 21 |
| Farnham Creek | 17.4 | 17 |
| Felton Creek | 31.7 | 32 |
| Fishhook River | 11.2 | 36 |
| Flandreau Creek | 27.9 | 47 |
| Flint Creek | 23.4 | 23 |
| Floodwood River | 35.7 | 51 |
| Floodwood River - West Branch | 15.2 | 15 |
| Florida Creek | 34.3 | 36 |
| Fort Ridgely Creek | 29 | 29 |
| Foster Creek | 15.5 | 16 |
| French River | 13 | 13 |
| Gale Brook | 16.6 | 17 |
| Garvin Brook | 19.4 | 37 |
| Getchell Creek | 19 | 19 |
| Gilbert Creek | 15.3 | 15 |
| Gooseberry River | 22.9 | 23 |
| Goose Creek (Shell Rock River tributary) | 11.4 | 11 |
| Goose Creek (St. Croix River tributary) | 28.9 | 29 |
| Grand Marais Creek | 37.4 | 37 |
| Grant Creek | 20.8 | 21 |
| Grindstone River | 6.7 | 33 |
| Grindstone River - North Branch | 9 | 9 |
| Grindstone River - South Branch | 17.4 | 17 |
| Groundhouse River | 39.8 | 59 |
| Groundhouse River - South Fork | 19.2 | 19 |
| Gull River | 20 | 20 |
| Hawk Creek | 61.7 | 93 |
| Hay Creek (Buffalo River tributary) | 17.6 | 18 |
| Hay Creek (Lower Tamarack River tributary) | 21.5 | 22 |
| Hay Creek (Mississippi River tributary) | 25.1 | 25 |
| Hay Creek (Redeye River tributary) | 18.9 | 19 |
| Hay Creek (Red Lake River tributary) | 32.8 | 33 |
| Hay Creek (Stony Creek (Buffalo River - South Branch tributary)) | 25.2 | 25 |
| Heron Lake Outlet | 14 | 146 |
| High Island Creek | 67.8 | 68 |
| Highwater Creek | 44.2 | 44 |
| Hilda Creek | 16.6 | 17 |
| Hillman Creek | 17.1 | 17 |
| Hill River | 60.8 | 61 |
| Isabella River | 18.8 | 130 |
| Island River | 13.9 | 52 |
| Jack Creek | 63.8 | 64 |
| Kabekona River | 30.9 | 31 |
| Kanaranzi Creek | 47.6 | 64 |
| Kanaranzi Creek - East Branch | 16 | 16 |
| Kawishiwi River | 49.1 | 69 |
| Keene Creek | 15 | 15 |
| Kettle River (Blueberry River tributary) | 26 | 26 |
| Kettle River (St. Croix River tributary) | 83.6 | 292 |
| Kettle River - West Branch | 17.2 | 17 |
| Kittleson Creek | 17 | 17 |
| Knife River (Lake Superior tributary) | 23.8 | 43 |
| Knife River (Snake River (St. Croix River tributary)) | 27.4 | 27 |
| Knife River - West Branch (Lake Superior tributary) | 19.6 | 20 |
| Lac qui Parle River | 119.3 | 337 |
| Lac qui Parle River - West Branch | 55.5 | 113 |
| Langley River | 11.8 | 12 |
| Lazarus Creek | 48.3 | 73 |
| Leaf River | 43.6 | 236 |
| Leech Lake River | 52.6 | 247 |
| Lester River | 19.4 | 19 |
| Le Sueur Creek | 26.4 | 26 |
| Le Sueur River | 110.6 | 359 |
| Lily Creek | 21.4 | 21 |
| Lime Creek (Des Moines River tributary) | 27.1 | 27 |
| Lime Creek (Winnebago River tributary) | 6.2 | 6 |
| Little Ann River | 12.4 | 12 |
| Little Badger Creek | 17.8 | 18 |
| Little Beaver Creek | 15.2 | 15 |
| Little Cannon River | 30.6 | 31 |
| Little Cedar River | 14.6 | 15 |
| Little Chippewa River | 30.7 | 31 |
| Little Cobb River | 36.1 | 55 |
| Little Cottonwood River | 82.2 | 82 |
| Little Elk River | 29.4 | 47 |
| Little Elk River - South Branch | 17.9 | 18 |
| Little Fork River | 161.5 | 584 |
| Little Indian Sioux River | 33.2 | 33 |
| Little Isabella River | 33 | 33 |
| Little Minnesota River | 5 | 5 |
| Little Mississippi River | 23.2 | 44 |
| Little Net River | 12 | 12 |
| Little Nokasippi River | 13.8 | 14 |
| Little Partridge River | 21.3 | 21 |
| Little Pine River | 30.1 | 54 |
| Little Rock Creek (Little Rock River tributary) | 17 | 17 |
| Little Rock Creek (Mississippi River tributary) | 33.5 | 34 |
| Little Rock Creek (Red Lake River tributary) | 15.9 | 16 |
| Little Rock River | 21.8 | 43 |
| Little Sand Creek | 16.8 | 17 |
| Little Sioux River | 16.9 | 37 |
| Little Sioux River - West Fork | 11.3 | 11 |
| Little Tamarac River | 14.2 | 14 |
| Little Two River | 16.2 | 16 |
| Little Willow River | 21.5 | 22 |
| Lone Tree Creek | 19.2 | 19 |
| Long Prairie River | 96 | 190 |
| Lost Creek (Lac qui Parle River - West Branch tributary) | 9.9 | 20 |
| Lost River (Clearwater River (Red Lake River tributary)) | 76.2 | 215 |
| Lost River (Nett Lake River tributary) | 15.2 | 15 |
| Lost River (Tamarac River (Red Lake River tributary)) | 24.5 | 25 |
| Lower Tamarack River | 39 | 95 |
| Malone Creek | 21.3 | 21 |
| Manitou River | 25.7 | 37 |
| Manitou River - South Branch | 11.5 | 12 |
| Manomin Creek | 24.8 | 25 |
| Maple River | 80.4 | 108 |
| Marsh Creek | 35.5 | 36 |
| Marsh River | 49.4 | 49 |
| Mashaug Creek | 17.6 | 18 |
| Mayhew Creek | 26.7 | 27 |
| McDermott Creek | 19 | 19 |
| Meadow Creek | 25.5 | 26 |
| Medary Creek | 14.3 | 14 |
| Middle Branch Rush River | 36.1 | 36 |
| Middle River | 96.1 | 96 |
| Midway River | 19.2 | 19 |
| Mill Creek | 15.1 | 15 |
| Milliken Creek | 20.7 | 21 |
| Minnehaha Creek | 36.8 | 37 |
| Minneopa Creek | 20.3 | 20 |
| Minnesota River | 356.9 | 4,166 |
| Minnesota Slough | 6 | 30 |
| Mission Creek | 25.2 | 25 |
| Mississippi River | 671.4 | 13,045 |
| Mitawan Creek | 15.5 | 16 |
| Money Creek (Root River tributary) | 15.8 | 16 |
| Money Creek (Root River tributary) | 26.3 | 26 |
| Monighan Creek | 1.2 | 1 |
| Moose Brook | 15.4 | 15 |
| Moose Horn River | 36.7 | 51 |
| Moose Horn River - West Fork | 13.8 | 14 |
| Moose River (Thief River tributary) | 23.3 | 23 |
| Moose River (Willow River (Mississippi River tributary)) | 23.8 | 24 |
| Moran Creek | 23.2 | 23 |
| Mosquito Creek | 20.9 | 21 |
| Mound Creek | 24.7 | 25 |
| Mud Brook | 23.5 | 24 |
| Mud Creek (Chippewa River - East Branch tributary) | 18.6 | 19 |
| Mud Creek (Chippewa River - East Branch tributary) | 24 | 24 |
| Mud Creek (Rock River tributary) | 14.7 | 15 |
| Mud Creek (Snake River (St. Croix River tributary)) | 28.9 | 29 |
| Mud Creek (Yellow Medicine River tributary) | 28.3 | 28 |
| Muddy Creek | 31.6 | 32 |
| Mud Hen Creek | 21.3 | 46 |
| Mud River | 34.2 | 34 |
| Murphy Creek | 16.1 | 16 |
| Mustinka River | 69.2 | 171 |
| Necktie River | 28.1 | 28 |
| Nemadji River | 35.1 | 110 |
| Nemadji River - South Fork | 12 | 49 |
| Net River | 24.6 | 37 |
| Nett Lake River | 45.8 | 61 |
| Ninemile Creek | 16 | 16 |
| Nokasippi River | 46.9 | 84 |
| North Cormorant River | 39.2 | 39 |
| North Turtle River | 23.4 | 23 |
| North Two River | 24.5 | 25 |
| Oak Creek | 20.8 | 21 |
| O'Brien Creek | 20.1 | 37 |
| Ocheyedan River | 8.6 | 9 |
| Okabena Creek | 46.9 | 68 |
| Otter Creek (Cedar River tributary) | 13.8 | 14 |
| Otter Creek (Crow River - South Fork tributary) | 18.9 | 19 |
| Otter Creek (Little Rock River tributary) | 3.9 | 4 |
| Otter Creek (St. Louis River tributary) | 18.8 | 19 |
| Otter Tail River | 182.2 | 321 |
| Paleface River | 26 | 26 |
| Partridge River (Crow Wing River tributary) | 32.6 | 54 |
| Partridge River (St. Louis River tributary) | 37 | 37 |
| Pelican Creek | 18.8 | 19 |
| Pelican River (Otter Tail River tributary) | 85.3 | 85 |
| Pelican River (Vermilion River tributary) | 36.4 | 36 |
| Pell Creek | 23.4 | 23 |
| Peppermint Creek | 15.3 | 15 |
| Perch Creek | 38.7 | 57 |
| Perry Creek | 16.4 | 16 |
| Pigeon River | 35.4 | 67 |
| Pike Creek | 23.5 | 24 |
| Pike River | 46.1 | 59 |
| Pine Creek (Mississippi River tributary) | 23.9 | 24 |
| Pine Creek (Rush Creek (Root River tributary)) | 23.6 | 24 |
| Pine Creek (Upper Iowa River tributary) | 4.9 | 5 |
| Pine River (Kettle River (St. Croix River tributary)) | 23 | 23 |
| Pine River (Mississippi River tributary) | 58.2 | 133 |
| Pine River - South Fork (Mississippi River tributary) | 20.9 | 21 |
| Pine River (St. Louis River tributary) | 18 | 18 |
| Pipestone Creek | 21.4 | 50 |
| Pipestone Creek - North Branch | 28.2 | 28 |
| Platte River | 61.8 | 134 |
| Plouff Creek | 15.4 | 15 |
| Plum Creek (Big Fork River tributary) | 18.6 | 19 |
| Plum Creek (Cottonwood River tributary) | 31.6 | 32 |
| Pokegama Creek | 22.5 | 23 |
| Pokegama River | 2 | 2 |
| Pomme de Terre River | 130.6 | 181 |
| Poplar Creek | 19 | 19 |
| Poplar River (Lake Superior tributary) | 27.1 | 42 |
| Poplar River (Lost River (Clearwater River (Red Lake River tributary))) | 58.8 | 59 |
| Popple River | 35.9 | 36 |
| Porter Creek | 27.3 | 27 |
| Prairie Creek (Cannon River tributary) | 29.5 | 30 |
| Prairie Creek (Little Fork River tributary) | 19 | 19 |
| Prairie River (Mississippi River tributary) | 63.1 | 126 |
| Prairie River (Sandy River (Mississippi River tributary)) | 37.1 | 65 |
| Prairie River - West Fork (Mississippi River tributary) | 16.6 | 17 |
| Purgatory Creek | 16.1 | 16 |
| Rabbit River | 31.5 | 32 |
| Rainy River | 85.2 | 387 |
| Ramsey Creek | 15.7 | 16 |
| Rapid River | 71.7 | 140 |
| Rapid River - East Fork | 24.4 | 24 |
| Rapid River - North Branch | 44.3 | 44 |
| Rat Root River | 66.6 | 109 |
| Rat Root River - East Branch | 42.7 | 43 |
| Redeye River | 66.9 | 86 |
| Red Lake River | 229.5 | 1,280 |
| Red River of the North | 400 | 3,731 |
| Redwood River | 126.6 | 234 |
| Reilly Brook | 39.9 | 40 |
| Rice Creek (Elk River tributary) | 8 | 29 |
| Rice Creek (Maple River tributary) | 27.6 | 28 |
| Rice Creek (Mississippi River tributary) | 28.7 | 29 |
| Riceford Creek | 32 | 32 |
| Rice River (Big Fork River tributary) | 14.9 | 32 |
| Rice River (Little Fork River tributary) | 53.2 | 53 |
| Rice River (Mississippi River tributary) | 57.5 | 58 |
| Ripple River | 42.6 | 43 |
| Rock Creek | 18.8 | 19 |
| Rock River | 91.2 | 345 |
| Rock River - East Branch | 17.2 | 17 |
| Rollingstone Creek | 17.4 | 17 |
| Root River | 81.8 | 599 |
| Root River - Middle Branch | 11.6 | 116 |
| Root River - North Branch | 68.6 | 69 |
| Root River - South Branch | 63 | 120 |
| Root River - South Fork | 52.4 | 102 |
| Roseau River | 118.3 | 168 |
| Roseau River - South Fork | 50.1 | 50 |
| Rose Creek | 27 | 27 |
| Roy Lake Creek | 15.7 | 16 |
| Ruffy Brook | 26.4 | 26 |
| Rum River | 160.2 | 402 |
| Rum River - West Branch | 56.4 | 77 |
| Rush Creek (Elm Creek (Mississippi River tributary)) | 16.9 | 17 |
| Rush Creek (Root River tributary) | 27.6 | 51 |
| Rush Creek (St. Croix River tributary) | 26.2 | 26 |
| Rush Creek (Straight River (Cannon River tributary)) | 15.2 | 15 |
| Rush River | 13 | 90 |
| Rush River - North Branch | 6.8 | 43 |
| Rush River - South Branch | 34.2 | 34 |
| Salem Creek | 23.7 | 24 |
| Sand Creek (Minnesota River tributary) | 37.5 | 65 |
| Sand Creek (St. Croix River tributary) | 43.3 | 60 |
| Sand Hill River | 105.2 | 122 |
| Sand River | 13.2 | 13 |
| Sandy River (Mississippi River tributary) | 36.9 | 102 |
| Sandy River (Red Lake River tributary) | 37.9 | 38 |
| Sauk River | 122.6 | 170 |
| Schoolcraft River | 35.9 | 36 |
| Seelye Brook | 15.8 | 16 |
| Sevenmile Creek | 18 | 18 |
| Shakopee Creek | 50.8 | 51 |
| Shannon River | 21.7 | 22 |
| Shell River | 49 | 135 |
| Shell Rock River | 20 | 38 |
| Shingobee River | 21 | 21 |
| Shotley Brook | 18.7 | 19 |
| Silver Creek (Bevens Creek tributary) | 18 | 18 |
| Silver Creek (Lost River (Clearwater River (Red Lake River tributary))) | 19.5 | 20 |
| Sixmile Brook | 16.1 | 16 |
| Skunk River | 37.2 | 72 |
| Sleepy Eye Creek | 50.3 | 50 |
| Snake River (Isabella River tributary) | 11.3 | 11 |
| Snake River (Red River of the North tributary) | 91 | 215 |
| Snake River - South Branch (Red River of the North tributary) | 27.5 | 28 |
| Snake River (St. Croix River tributary) | 104.2 | 314 |
| South Bluff Creek | 19.5 | 20 |
| South Cormorant River | 31.2 | 48 |
| South Creek | 39.8 | 40 |
| South Kawishiwi River | 19.8 | 20 |
| South Two River | 22.9 | 23 |
| Split Rock Creek | 33.7 | 137 |
| Split Rock River | 20.5 | 21 |
| Spring Branch Creek | 18.6 | 19 |
| Spring Creek (Big Sioux River tributary) | 12.7 | 13 |
| Spring Creek (Minnesota River tributary) | 20.6 | 21 |
| Spring Creek (Mississippi River tributary) | 17.4 | 17 |
| Spring Creek (Wild Rice River tributary) | 19.6 | 20 |
| Spring Creek (Yellow Medicine River tributary) | 39.9 | 40 |
| Spring Valley Creek | 21.6 | 22 |
| Spruce Creek | 15.8 | 16 |
| Spunk Creek | 24.2 | 24 |
| Stanchfield Creek | 30.2 | 30 |
| St. Croix River | 129.2 | 1,141 |
| Steamboat River | 5.7 | 34 |
| Stewart River | 16.9 | 17 |
| St. Francis River | 79.1 | 101 |
| St. James Creek | 29 | 54 |
| St. Louis River | 193.1 | 1,011 |
| Stoney Brook | 16.2 | 16 |
| Stony Brook | 20.7 | 21 |
| Stony Creek (Buffalo River - South Branch tributary) | 37 | 62 |
| Stony Creek (St. Louis River tributary) | 19.7 | 20 |
| Stony River | 43.2 | 43 |
| Stony Run | 15.3 | 15 |
| Straight River (Cannon River tributary) | 55.6 | 103 |
| Straight River (Fishhook River tributary) | 25.2 | 25 |
| Stump River | 15.1 | 15 |
| Sturgeon River (Big Fork River tributary) | 26.2 | 52 |
| Sturgeon River - East Branch (Little Fork River tributary) | 13.3 | 13 |
| Sturgeon River (Little Fork River tributary) | 51.5 | 146 |
| Sucker Creek | 17.5 | 18 |
| Sunrise River | 44.1 | 87 |
| Sunrise River - North Branch | 25 | 25 |
| Sunrise River - West Branch | 17.6 | 18 |
| Swamp River | 16.3 | 16 |
| Swan Creek | 21.2 | 21 |
| Swan Lake Outlet | 17.7 | 18 |
| Swan River (Mississippi River tributary) | 73.8 | 74 |
| Swan River (Mississippi River tributary) | 38.6 | 39 |
| Swift River | 12.4 | 12 |
| Tait River | 14.8 | 15 |
| Tamarack River | 28 | 28 |
| Tamarac River (Red Lake River tributary) | 31.2 | 70 |
| Tamarac River (Red River of the North tributary) | 79.1 | 79 |
| Temperance River | 41.1 | 57 |
| Tenmile Creek | 31.7 | 32 |
| Thief River | 43.2 | 67 |
| Third River | 34.8 | 35 |
| Threemile Creek | 48.6 | 49 |
| Tibbetts Brook | 17 | 17 |
| Toad River | 21.6 | 22 |
| Tom Creek | 0.8 | 1 |
| Trott Brook | 15.3 | 15 |
| Trout Brook | 24.9 | 25 |
| Trout Run | 17.2 | 17 |
| Turtle Creek (Cedar River tributary) | 25 | 25 |
| Turtle Creek (Long Prairie River tributary) | 28.2 | 28 |
| Turtle Creek (Straight River (Cannon River tributary)) | 15.6 | 16 |
| Turtle River | 50 | 73 |
| Twelvemile Creek | 55.1 | 102 |
| Twelvemile Creek - West Branch | 27.1 | 27 |
| Twelvemile Creek - West Fork | 19.3 | 19 |
| Twin Creek | 17.1 | 17 |
| Two Island River | 15.9 | 16 |
| Two River | 5.6 | 53 |
| Two Rivers | 28 | 203 |
| Two Rivers - Middle Branch | 33.7 | 34 |
| Two Rivers - North Branch | 63.5 | 64 |
| Two Rivers - South Branch | 78.2 | 78 |
| Upper Iowa River | 23.5 | 28 |
| Upper Tamarack River | 8.9 | 9 |
| Us-Kab-Wan-Ka River | 21 | 21 |
| Valley River | 24.9 | 25 |
| Vermilion River | 47.7 | 101 |
| Vermillion River | 59.2 | 71 |
| Vermillion River - South Branch | 11.9 | 12 |
| Vermillion Slough | 6.6 | 78 |
| Wabasha Creek | 24.1 | 24 |
| Wapsipinicon River | 4.4 | 4 |
| Warroad River | 3.4 | 36 |
| Warroad River - East Branch | 32.4 | 32 |
| Washington Creek | 21.3 | 21 |
| Watab River | 9.9 | 24 |
| Watab River - South Fork | 13.8 | 14 |
| Water Hen Creek | 24.9 | 25 |
| Watonwan River | 112.1 | 339 |
| Watonwan River - North Fork | 39.2 | 39 |
| Watonwan River - South Fork | 76.6 | 77 |
| Watson Creek | 21.3 | 21 |
| Wells Creek | 28.4 | 28 |
| West Split Rock River | 15.6 | 30 |
| West Swan River | 42.3 | 42 |
| West Two River | 28 | 28 |
| Whisky Creek | 31.4 | 31 |
| Whisky Creek | 20.8 | 21 |
| White Earth River | 30.4 | 30 |
| Whiteface River | 66.6 | 167 |
| Whiteface River - North Branch | 25.5 | 26 |
| Whiteface River - South Branch | 22.2 | 22 |
| Whitewater River | 18.2 | 110 |
| Whitewater River - Middle Fork | 22.5 | 23 |
| Whitewater River - North Fork | 34.1 | 34 |
| Whitewater River - South Fork | 35.1 | 35 |
| Wild Rice River | 185.3 | 414 |
| Wild Rice River - South Branch | 61.4 | 61 |
| Willow Creek (Flandreau Creek tributary) | 19.4 | 19 |
| Willow Creek (Root River - South Branch tributary) | 15.8 | 16 |
| Willow River (Kettle River (St. Croix River tributary)) | 31.4 | 31 |
| Willow River (Little Fork River tributary) | 33.2 | 33 |
| Willow River (Mississippi River tributary) | 77.3 | 101 |
| Wing River | 48.4 | 48 |
| Winnebago Creek | 24 | 24 |
| Winter Road River | 39.1 | 54 |
| Wisel Creek | 17.6 | 18 |
| Wolf Creek | 18.4 | 18 |
| Wolverton Creek | 20.4 | 20 |
| Woodbury Creek | 15.1 | 15 |
| Yellow Bank River | 12 | 47 |
| Yellow Bank River - North Fork | 9.1 | 9 |
| Yellow Bank River - South Fork | 25.9 | 26 |
| Yellow Medicine River | 108.1 | 259 |
| Yellow Medicine River - North Branch | 37.1 | 37 |
| Yellow Medicine River - South Branch | 45.1 | 45 |
| Zumbro River | 64.7 | 451 |
| Zumbro River - Middle Fork | 52.9 | 182 |
| Zumbro River - Middle Fork - North Branch | 31.1 | 31 |
| Zumbro River - Middle Fork - South Branch | 46.6 | 78 |
| Zumbro River - North Fork | 57.6 | 83 |
| Zumbro River - South Fork | 57.6 | 121 |