| Bear Lake | Bear Lake |  |  | 199.52 | LAKE | 279700 | Waupaca | 2025 | Excellent |  |  | 
| Beaver Creek | Beaver Creek | 0.00 | 5.38 | 5.38 | RIVER | 283000 | Waupaca | 2015 | Good |  |  | 
| Big Falls Pond | Big Falls Pond |  |  | 0.44 | RESERVOIR | 285300 | Waupaca |  | Unknown |  |  | 
| Blake Creek | Blake Creek | 0.00 | 10.06 | 10.06 | RIVER | 280900 | Waupaca | 2016 | Good |  |  | 
| Blake Creek | Blake Creek | 10.06 | 12.86 | 2.80 | RIVER | 280900 | Waupaca | 2015 | Good | CLASS II | ERW | 
| Blue Mountain Lake | Blue Mountain (Goerke) Lake |  |  | 8.17 | LAKE | 182400 | Waupaca | 2009 | Unknown |  |  | 
| Campbell Lake | Campbell Lake |  |  | 39.87 | LAKE | 284300 | Waupaca | 2020 | Good |  |  | 
| Cedar Lake | Cedar Lake |  |  | 45.62 | LAKE | 283800 | Waupaca | 2022 | Excellent |  |  | 
| Chapin Lake | Chapin Lake |  |  | 7.33 | LAKE | 183300 | Waupaca | 2015 | Good |  |  | 
| Driscol Lake | Driscol Lake |  |  | 3.60 | LAKE | 185100 | Waupaca |  | Unknown |  |  | 
| Fountain Creek | Fountain Creek | 0.00 | 2.26 | 2.26 | RIVER | 280800 | Waupaca | 2021 | Good |  |  | 
| Fox Lake | Fox Lake |  |  | 3.55 | LAKE | 279900 | Waupaca |  | Unknown |  |  | 
| Goodhal Lake | Goodhal Lake |  |  | 33.06 | LAKE | 281900 | Waupaca | 2020 | Fair |  |  | 
| Gregerson Lake | Gregerson Lake |  |  | 36.71 | LAKE | 186900 | Waupaca | 2011 | Unknown |  |  | 
| Hatch Lake | Hatch Lake |  |  | 113.36 | LAKE | 282800 | Waupaca | 2025 | Good |  |  | 
| Jones Lake | Jones Lake |  |  | 7.22 | LAKE | 282500 | Waupaca | 2013 | Unknown |  |  | 
| Little Creek | Little Creek | 0.00 | 5.89 | 5.89 | RIVER | 280700 | Waupaca | 2021 | Poor |  |  | 
| Little Wolf River | Little Wolf River | 8.76 | 14.02 | 5.26 | RIVER | 272400 | Marathon, Portage, Waupaca | 2018 | Excellent |  | ERW | 
| Little Wolf River | Little Wolf River | 15.50 | 37.85 | 22.35 | RIVER | 272400 | Marathon, Portage, Waupaca | 2020 | Good |  |  | 
| Lutz Lake | Kruse Lutz Lake |  |  | 17.00 | LAKE | 282000 | Waupaca | 2015 | Good |  |  | 
| Manawa Millpond | Manawa Millpond |  |  | 180.46 | IMPOUNDMENT | 280400 | Waupaca | 2017 | Good |  |  | 
| Mountain Lake | Mountain Lake |  |  | 41.83 | LAKE | 193100 | Waupaca | 2016 | Good |  |  | 
| Mud Lake | Mud Lake |  |  | 9.88 | LAKE | 283300 | Waupaca |  | Unknown |  |  | 
| North Fork Blake Creek | Blake Creek-N. Fork | 0.00 | 4.98 | 4.98 | RIVER | 281500 | Waupaca | 2015 | Good | CLASS II | ERW | 
| Preuss Lake | Preuss Lake |  |  | 2.76 | LAKE | 281100 | Waupaca |  | Unknown |  |  | 
| Price Lake | Price Lake |  |  | 16.01 | LAKE | 284400 | Waupaca | 2016 | Good |  |  | 
| Roland Lake | Rolands Bestful Lake |  |  | 15.45 | LAKE | 197200 | Waupaca | 2015 | Good |  |  | 
| School Section Lake | School Section Lake |  |  | 38.53 | LAKE | 283600 | Waupaca | 2025 | Excellent |  |  | 
| Shaw Creek | Shaw Creek | 0.00 | 7.95 | 7.95 | RIVER | 283100 | Waupaca | 2017 | Fair |  |  | 
| South Fork Blake Creek | Blake Creek-S. Fork | 0.00 | 1.00 | 1.00 | RIVER | 282100 | Waupaca | 2016 | Good | CLASS II | ERW | 
| South Fork Blake Creek | Blake Creek - S. Fork | 1.00 | 6.34 | 5.34 | RIVER | 282100 | Waupaca | 2018 | Good | CLASS I | ERW | 
| South Fork Whitcomb Creek | Whitcomb Creek-S. Fork | 0.00 | 4.24 | 4.24 | RIVER | 284700 | Waupaca | 2021 | Good | CLASS I |  | 
| Spaulding Creek | Spaulding Creek | 0.00 | 9.12 | 9.12 | RIVER | 284900 | Waupaca | 2015 | Good | CLASS I | ORW | 
| Spiegelberg Creek | Spielgelburg Creek | 0.00 | 1.74 | 1.74 | RIVER | 279600 | Waupaca | 2018 | Good |  |  | 
| Spiegelberg Creek | Spielgelburg Creek | 3.15 | 4.65 | 1.51 | RIVER | 279600 | Waupaca |  | Fair |  |  | 
| Storm Lake | Strum Lake |  |  | 14.67 | LAKE | 199500 | Waupaca | 2010 | Unknown |  |  | 
| Thiel Creek | Thiel Creek | 0.00 | 6.70 | 6.70 | RIVER | 280100 | Waupaca | 2021 | Poor |  |  | 
| Twin Lake | Twin Lake, North (Big Twin) |  |  | 17.39 | LAKE | 284100 | Waupaca | 2016 | Good |  |  | 
| Twin Lake | Twin Lake, Little |  |  | 10.49 | LAKE | 284000 | Waupaca | 2015 | Fair |  |  | 
| Un Spring | Un Spring |  |  | 0.76 | LAKE | 238000 | Waupaca |  | Unknown |  |  | 
| Un Spring | Un Spring |  |  | 1.20 | LAKE | 238100 | Waupaca |  | Unknown |  |  | 
| Un Spring | Un Spring |  |  | 1.51 | LAKE | 282700 | Waupaca |  | Unknown |  |  | 
| Unnamed | Unnamed Stream | 0.00 | 0.16 | 0.16 | RIVER | 283700 | Waupaca |  | Unknown |  |  | 
| Unnamed | Unnamed Stream | 0.00 | 0.16 | 0.16 | RIVER | 5019474 | Waupaca |  | Unknown |  |  | 
| Unnamed | Local Water | 0.00 | 0.23 | 0.23 | RIVER | 5019526 | Waupaca |  | Unknown |  |  | 
| Unnamed | Local Water | 0.00 | 0.35 | 0.35 | RIVER | 5016114 | Waupaca |  | Unknown |  |  | 
| Unnamed | Un Cr Trib To Whitcomb Cr | 0.00 | 0.39 | 0.39 | RIVER | 284200 | Waupaca |  | Unknown |  |  | 
| Unnamed | Unnamed Stream | 0.00 | 0.45 | 0.45 | RIVER | 5019269 | Waupaca |  | Unknown |  |  | 
| Unnamed | Local Water | 0.00 | 0.48 | 0.48 | RIVER | 5019639 | Waupaca |  | Unknown |  |  | 
| Unnamed | Local Water | 0.00 | 0.51 | 0.51 | RIVER | 279800 | Waupaca |  | Unknown |  |  | 
| Unnamed | Unnamed Stream | 0.00 | 0.52 | 0.52 | RIVER | 5019418 | Waupaca |  | Unknown |  |  | 
| Unnamed | Local Water | 0.00 | 0.54 | 0.54 | RIVER | 281300 | Waupaca |  | Unknown |  |  | 
| Unnamed | Local Water | 0.00 | 0.54 | 0.54 | RIVER | 5017351 | Waupaca |  | Unknown |  |  | 
| Unnamed | Local Water | 0.00 | 0.57 | 0.57 | RIVER | 281600 | Waupaca |  | Unknown |  |  | 
| Unnamed | Unnamed Stream | 0.00 | 0.64 | 0.64 | RIVER | 283200 | Waupaca |  | Unknown |  |  | 
| Unnamed | Un Cr Trib To Whitcomb | 0.00 | 0.69 | 0.69 | RIVER | 283500 | Waupaca |  | Unknown |  |  | 
| Unnamed | Local Water | 0.00 | 0.72 | 0.72 | RIVER | 5016006 | Waupaca | 2021 | Unknown |  |  | 
| Unnamed | Local Water | 0.00 | 0.79 | 0.79 | RIVER | 5017175 | Waupaca |  | Unknown |  |  | 
| Unnamed | Local Water | 0.00 | 0.82 | 0.82 | RIVER | 5019714 | Waupaca |  | Unknown |  |  | 
| Unnamed | Local Water | 0.00 | 0.96 | 0.96 | RIVER | 281200 | Waupaca |  | Unknown |  |  | 
| Unnamed | Local Water | 0.00 | 1.05 | 1.05 | RIVER | 282400 | Waupaca |  | Unknown |  |  | 
| Unnamed | Local Water | 0.00 | 1.11 | 1.11 | RIVER | 281000 | Waupaca |  | Unknown |  |  | 
| Unnamed | Unnamed Stream | 0.00 | 1.16 | 1.16 | RIVER | 5018179 | Waupaca | 2021 | Good |  |  | 
| Unnamed | Local Water | 0.00 | 1.17 | 1.17 | RIVER | 284600 | Waupaca |  | Unknown |  |  | 
| Unnamed | Local Water | 0.00 | 1.29 | 1.29 | RIVER | 281800 | Waupaca |  | Good | CLASS I |  | 
| Unnamed | Local Water | 0.00 | 1.31 | 1.31 | RIVER | 284500 | Waupaca | 2015 | Good | CLASS I |  | 
| Unnamed | Local Water | 0.00 | 1.40 | 1.40 | RIVER | 281400 | Waupaca |  | Unknown |  |  | 
| Unnamed | Local Water | 0.00 | 1.50 | 1.50 | RIVER | 5016907 | Waupaca |  | Unknown |  |  | 
| Unnamed | Local Water | 0.00 | 1.70 | 1.70 | RIVER | 283900 | Waupaca |  | Unknown |  |  | 
| Unnamed | Local Water | 0.00 | 1.89 | 1.89 | RIVER | 5019822 | Waupaca |  | Unknown |  |  | 
| Unnamed | Unnamed Stream | 0.00 | 1.90 | 1.90 | RIVER | 280200 | Waupaca |  | Unknown |  |  | 
| Unnamed | Local Water | 0.00 | 1.91 | 1.91 | RIVER | 5017909 | Waupaca |  | Unknown |  |  | 
| Unnamed | Unnamed Stream | 0.00 | 2.05 | 2.05 | RIVER | 5018549 | Waupaca | 2021 | Good |  |  | 
| Unnamed | Local Water | 0.00 | 2.65 | 2.65 | RIVER | 282200 | Waupaca | 2005 | Good |  |  | 
| Unnamed | Unnamed Trib to Whitcomb Cr | 1.31 | 3.02 | 1.71 | RIVER | 284500 | Waupaca | 2015 | Good | CLASS I |  | 
| Unnamed | Un Lake |  |  | 0.72 | LAKE | 207600 | Waupaca |  | Unknown |  |  | 
| Unnamed | Un Lake |  |  | 0.45 | LAKE | 207700 | Waupaca |  | Unknown |  |  | 
| Unnamed | Unamed |  |  | 41.52 | LAKE | 208500 | Waupaca |  | Unknown |  |  | 
| Unnamed | Un Lake |  |  | 2.00 | LAKE | 208600 | Waupaca |  | Unknown |  |  | 
| Unnamed | Un Lake |  |  | 2.19 | LAKE | 208900 | Waupaca |  | Unknown |  |  | 
| Unnamed | Un Lake |  |  | 1.47 | LAKE | 209000 | Waupaca |  | Unknown |  |  | 
| Unnamed | Un Lake |  |  | 2.93 | LAKE | 210000 | Waupaca |  | Unknown |  |  | 
| Unnamed | Un Lake |  |  | 6.50 | LAKE | 281700 | Waupaca | 2010 | Unknown |  |  | 
| Unnamed | Un Lake |  |  | 4.61 | LAKE | 282300 | Waupaca |  | Unknown |  |  | 
| Unnamed | Un Lake |  |  | 1.53 | LAKE | 282600 | Waupaca |  | Unknown |  |  | 
| Unnamed | Local Water |  |  | 5.10 | LAKE | 5544787 | Waupaca |  | Unknown |  |  | 
| Unnamed | Unamed |  |  | 0.99 | LAKE | 5544815 | Waupaca |  | Unknown |  |  | 
| Unnamed | Local Water |  |  | 2.11 | LAKE | 5544894 | Waupaca |  | Unknown |  |  | 
| Unnamed | Local Water |  |  | 3.57 | LAKE | 5548605 | Waupaca |  | Unknown |  |  | 
| Vesey Lake | Vesely Lake |  |  | 54.46 | LAKE | 240100 | Waupaca | 2015 | Good |  |  | 
| Whitcomb Creek | Whitcomb Creek | 0.00 | 15.82 | 15.82 | RIVER | 283400 | Waupaca | 2021 | Good | CLASS I | ORW | 
| Woodnorth Lake | Woodnorth Lake |  |  | 5.11 | LAKE | 280000 | Waupaca | 2010 | Unknown |  |  |