| Red Lake | 288,800 | 36 ft | 4.8 ft | starry stonewort, zebra mussel |
| Red (Upper Red) Lake near Waskish | 119,295 | 15 ft | 3.5 ft | starry stonewort |
| Cass Lake near Cass Lake | 15,958 | 120 ft | 11.6 ft | starry stonewort, zebra mussel |
| Bemidji (main lake) near Lavinia (Beltrami) | 6,596 | 76 ft | 10.9 ft | Not listed |
| Big Lake near Bemidji | 3,596 | 35 ft | 10.1 ft | zebra mussel |
| Blackduck Lake near Blackduck | 2,711 | 28 ft | 7.5 ft | faucet snail, starry stonewort |
| Gull Lake near Tenstrike | 2,256 | 23 ft | 6.5 ft | starry stonewort |
| Puposky Lake near Puposky | 2,177 | 20 ft | 4.8 ft | Not listed |
| Kitchi Lake near Pennington | 1,858 | 50 ft | 7.1 ft | zebra mussel |
| Turtle River near Turtle River | 1,740 | 63 ft | 9.0 ft | starry stonewort, zebra mussel |
| Turtle Lake near Bemidji | 1,606 | 45 ft | 10.2 ft | starry stonewort |
| Andrusia Lake near Cass Lake | 1,590 | 60 ft | 13.8 ft | zebra mussel |
| Pimushe Lake near Pennington | 1,230 | 40 ft | 8.6 ft | starry stonewort, zebra mussel |
| Wolf Lake near Bemidji | 1,073 | 57 ft | 10.2 ft | starry stonewort, zebra mussel |
| Clearwater Lake near Leonard | 998.8 | 65 ft | 8.1 ft | Not listed |
| Movil Lake near Bemidji | 853.5 | 50 ft | 13.4 ft | Not listed |
| Three Island Lake near Turtle River | 729.5 | 25 ft | 11.4 ft | starry stonewort |
| Beltrami Lake near Bemidji | 725.8 | 50 ft | 11.6 ft | starry stonewort |
| Rabideau Lake near Blackduck | 680.4 | 112 ft | 8.9 ft | Not listed |
| Long Lake near Werner | 664.2 | 18 ft | 6.9 ft | Not listed |
| Irving Lake near Bemidji | 661.3 | 19 ft | 5.4 ft | zebra mussel |
| Big Rice Lake near Pennington | 632.6 | 13 ft | 6.9 ft | zebra mussel |
| Moose Lake near Pennington | 600.7 | 71 ft | 12.8 ft | starry stonewort |
| Balm Lake near Solway | 537.4 | 33 ft | 11.9 ft | Not listed |
| Marquette Lake near Bemidji | 527.6 | 51 ft | 8.8 ft | zebra mussel |
| Julia Lake near Puposky | 511.3 | 43 ft | 10.3 ft | Not listed |
| Little Turtle Lake near Puposky | 468.5 | 25 ft | 7.5 ft | Not listed |
| Campbell Lake near Puposky | 462.6 | 25 ft | 6.7 ft | Not listed |
| Medicine Lake near Tenstrike | 461.3 | 44 ft | 9.2 ft | Not listed |
| Island Lake near Island Lake | 424.2 | 14 ft | 6.2 ft | Not listed |
| Long Lake near Turtle River | 411.9 | 87 ft | 18.6 ft | Not listed |
| Swenson Lake near Bemidji | 411.8 | 76 ft | 21.6 ft | Not listed |
| White Fish Lake near Nebish | 388 | 98 ft | 13.0 ft | Not listed |
| Big Bass Lake | 384 | 17 ft | 10.7 ft | Not listed |
| Little Bass Lake near Lavinia (Beltrami) | 362.6 | 22 ft | 16.1 ft | Not listed |
| Buck Lake near Pennington | 360 | 40 ft | 12.6 ft | zebra mussel |
| Little Moose Lake near Pennington | 357 | 4 ft | 3.7 ft | Not listed |
| Bootleg Lake near Wilton (Beltrami) | 332.4 | 30 ft | 6.5 ft | Not listed |
| North Twin Lake near Turtle River | 325.6 | 59 ft | 18.8 ft | starry stonewort |
| Lake Bemidji near Bemidji | 322.9 | 24 ft | 12.0 ft | Not listed |
| Deer Lake near Bemidji | 297.8 | 42 ft | 10.6 ft | Not listed |
| Manomin Lake near Wilton (Beltrami) | 288 | 26 ft | 5.5 ft | Not listed |
| Grass Lake near Wilton (Beltrami) | 282 | 7 ft | 4.2 ft | Not listed |
| Black Lake near Turtle River | 270.6 | 42 ft | 9.7 ft | Not listed |
| Sandy Lake near Tenstrike | 261.3 | 32 ft | 13.7 ft | Not listed |
| Gilstad Lake near Blackduck | 256.8 | 55 ft | 6.2 ft | Not listed |
| Rice Pond near Tenstrike | 247 | 7 ft | 2.6 ft | Not listed |
| South Twin Lake near Bemidji | 221.6 | 45 ft | 17.8 ft | Not listed |
| Grant Lake near Wilton (Beltrami) | 213.7 | 92 ft | 10.4 ft | Not listed |
| Dutchman Lake near Hines | 209 | 7 ft | 2.9 ft | Not listed |
| Larson Lake near Puposky | 202.6 | 49 ft | 7.7 ft | Not listed |
| Buzzle Lake near Pinewood | 201.6 | 83 ft | 17.4 ft | Not listed |
| Dellwater Lake near Bemidji | 198.6 | 29 ft | 11.1 ft | Not listed |
| Windigo Lake near Cass Lake | 195.1 | 25 ft | 8.8 ft | Not listed |
| Ten Lake near Andrusia | 182 | 3 ft | 4.5 ft | Not listed |
| Sylvia Lake near Debs | 181.1 | 38 ft | 16.8 ft | Not listed |
| Fox Lake near Werner | 164.8 | 19 ft | 11.5 ft | Not listed |
| Gull Lake near Tenstrike | 138.3 | 20 ft | 8.3 ft | Not listed |
| Popple Lake near Pennington | 135 | 4 ft | 5.2 ft | Not listed |
| Schram Lake near Bald Eagle Center | 133 | 3 ft | 4.0 ft | Not listed |
| Moose Lake near Solway | 131.8 | 13 ft | 4.4 ft | Not listed |
| Silver Lake near Andrusia | 131.8 | 55 ft | 15.2 ft | Not listed |
| Moose Lake near Debs | 131.7 | 61 ft | 8.0 ft | Not listed |
| Burns Lake near Pennington | 131 | 13 ft | 4.0 ft | Not listed |
| Lost Lake near Andrusia | 129.6 | 31 ft | 12.1 ft | Not listed |
| Jackson Lake near Nebish | 128.4 | 37 ft | 10.9 ft | Not listed |
| Whitefish Lake near Pinewood | 128.1 | 30 ft | 12.1 ft | Not listed |
| Little Rice Lake near Pennington | 123.1 | 26 ft | 9.2 ft | zebra mussel |
| Myrtle Lake near Debs | 117.6 | 50 ft | 13.5 ft | Not listed |
| Anderson Lake near Hines | 114 | 7 ft | 4.8 ft | Not listed |
| Funkley Lake near Pinewood | 109 | 20 ft | 10.4 ft | Not listed |
| Erickson Lake | 106 | | 9.2 ft | Not listed |
| Meadow Lake near Turtle River | 105.8 | 28 ft | 11.9 ft | Not listed |
| Sandy Lake near Debs | 103.4 | 72 ft | 13.0 ft | Not listed |
| Bass Lake near Puposky | 103 | 92 ft | 15.5 ft | Not listed |
| Boston Lake near Puposky | 102 | 30 ft | 8.7 ft | Not listed |
| Hagali Lake near Nebish | 96.8 | 27 ft | 9.4 ft | Not listed |
| Hanson Lake near Hines | 96 | 7 ft | 2.1 ft | Not listed |
| Pug Hole Lake near Pennington | 85 | | 10.2 ft | zebra mussel |
| Ten Mile Lake near Island Lake | 84 | 39 ft | 11.0 ft | Not listed |
| Dark Lake near Nebish | 82 | 130 ft | 16.2 ft | Not listed |
| Stocking Lake near Andrusia | 80.7 | 9 ft | 4.5 ft | Not listed |
| Bass Lake near Tenstrike | 80 | 59 ft | 16.1 ft | Not listed |
| Little Buzzle Lake near Pinewood | 78 | 40 ft | 13.9 ft | Not listed |
| Silver Lake near Nebish | 77.4 | 45 ft | 12.4 ft | Not listed |
| Erick Lake near Aure | 75 | | 9.9 ft | Not listed |
| Lindgren Lake near Puposky | 58 | 69 ft | 12.7 ft | Not listed |
| Webster Lake near Blackduck | 47.4 | 15 ft | 9.5 ft | Not listed |
| Carr Lake near Bemidji | 42.4 | 30 ft | 11.5 ft | zebra mussel |
| Upper Lindgren Lake near Puposky | 40.9 | 43 ft | 12.8 ft | Not listed |
| Miller Lake near Wilton (Beltrami) | 38 | 24 ft | 14.3 ft | Not listed |
| Bullhead Lake near Kelliher | 36.4 | 17 ft | 7.8 ft | Not listed |
| Little Gnat Lake near Turtle River | 34.5 | 30 ft | 14.0 ft | Not listed |
| Benjamin Lake near Blackduck | 33.1 | 128 ft | 14.3 ft | Not listed |
| Nelson Lake near Tenstrike | 30.9 | 30 ft | 13.1 ft | Not listed |
| Carter Lake near Tenstrike | 30.5 | 69 ft | 14.5 ft | Not listed |
| Mission Lake near Andrusia | 26.7 | 20 ft | 9.7 ft | Not listed |
