| LAKE/POND | LOCATION | SPECIES | SPECIAL NOTES |
|---|
| Albion Reservoir #1 | Gaines | | |
| Albion Reservoir #2 | Albion | | |
| Almond Reservoir/Lake | Hornellsville | LMB CRA BNB CA SH S WS YP | |
| Baxter Lake | Tuscarora | | |
| Beaver Pond | Erin | | |
| Birdseye Hollow Pond | Bradford | BK CRA S BNB CP SH LMB YP | |
| Black Lake | Tyre | | |
| Blind Sodus Bay | Wolcott | NP BNB RB S SMB LMB CRA W YP WP | |
| Blue Pond | Wheatland | | |
| Braddock Bay | Greece | BF NP CP CC BNB RB S SMB LMB CRA W YP | |
| Buck Pond | Greece | BF NP CP CC BNB RB S LMB CRA W YP | |
| Buckeys Pond | Horseheads | | |
| Bull Head Pond | Geneseo | | |
| Bullhead Pond | Waterloo | | |
| Burnett Pond | Phelps | | |
| Canadice Lake | Canadice | LT BNT RT LLS RS A SMB LMB CP BNB YP RB S | |
| Canandaigua Lake | Ontario County/Yates County | BNT LT RT LMB SMB CP YP S RB CRA BNB | |
| Cayuga Lake | Cayuga County/Seneca County | LLS RT BNT LT NP YP S CP SMB LMB CRA BNB CA CC LG RS A | |
| Cayuta Lake | Catharine | W CP LMB YP S CRA RB BNB SH WS CA SMB | |
| Cement Plant Pond | Caledonia | | |
| Chapin Pond | Stafford | | |
| Cinnamon Lake | Orange | | |
| Cobbs Hill Reservoir | Rochester | | |
| Conesus Lake | Conesus | LMB SMB NP S TM A YP W BNB CRA CA | |
| Cranberry Pond | Greece | BF NP CP CC BNB RB S LMB CRA W YP | |
| Cranberry Pond | Thurston | | |
| Cranberry Pond | Victor | | |
| Crossmans Pond | Perinton | | |
| Crusoe Lake | Savannah | | |
| DEC Office Pond | Avon | S RB | |
| Dansville Reservoir | Wayland | A BNB SH LMB NP RB WS YP | |
| Daybrook Pond | Wayland | | |
| Deep Pond | Mendon | NP CP BNB RB S LMB CRA YP CA WS | |
| Devil’s Bathtub | Henrietta | | |
| Dewitt Pond | Batavia | BNT CRA S BNB CA LMB NP RB WS | |
| Divers Lake | Alabama | | |
| Duck Pond | Rathbone | | |
| Durand Lake | Irondequoit | NP BNB S LMB CRA | |
| East Bay | Huron | BF NP CC BNB RB S SMB LMB CRA YP WP | |
| Eastman Lake | Irondequoit | NP BNB S LMB CRA | |
| Eldridge Lake | Elmira | BNT RT LMB NP YP S CRA BNB SH WS CA | |
| Elmira Reservoir | Elmira | | |
| Erwin Pond | Erwin | | |
| Fairport Reservoirs | East Bloomfield | | |
| Foster Pond | Elmira | | |
| Foster Pond | Elmira | | |
| Gem Lake | Waterloo | | |
| Glenwood Lake | Medina | NP CC RB S SMB LMB CRA W | |
| Godfrey Pond | Stafford | | |
| Goodhue Lake | Addison | | |
| Grant Pond | Caledonia | | |
| Hemlock Lake | Hemlock | LT BNT RT LLS RS A SMB LMB CP BNB YP RB S CRA W | |
| Hemp Pond | Geneseo | | |
| Honeoye Lake | Richmond | W LMB SMB S YP CRA CP CA | |
| Hornell Reservoir #1 | Fremont | | |
| Hornell Reservoir #2 | Fremont | | |
| Hornell Reservoir #3 | Fremont | | |
| Horseshoe Lake | Stafford | | |
| Horseshoe Pond | Avon | | |
| Hundred Acre Pond | Mendon | NP CP BNB RB S LMB CRA YP CA WS | |
| Irondequoit Bay | Monroe County | BF CP NP CC BNB RB S SMB LMB CRA W YP BNT RT COS CHS CA | |
| Junius Ponds | Junius | | |
| Keuka Lake | Steuben County/Yates County | RT LT BNT LLS A RS SMB CP LMB NP YP RB S CRA | |
| Lake Demons | Howard | | |
| Lake Lacoma | Perinton | | |
| Lake Ontario | Monroe County/Ontario County/Orleans County/Wayne County | | |
| Lake Riley (Cobbs Hill Park Pond) | Rochester | NP BNB WP RB S LMB CRA | |
| Lake Salubria | Bath | | |
| Lamoka Lake | Tyrone | LMB SMB CP YP S CRA RB BNB SH WS CA M | |
| LeRoy Reservoir | Pavilion | | |
| Lilly Pond | Perinton | | |
| Livonia Reservoir | Conesus | | |
| Log Pond | Caledonia | | |
| Long Pond | Greece | BF NP CP CC BNB RB S LMB CRA W YP | |
| Loon Lake | Wayland | YP S CRA CP | |
| Lost Pond | Mendon | NP CP BNB RB S LMB CRA YP | |
| Loucks Pond | Avoca | | |
| Lowe Pond | Big Flats | | |
| McCargo Lake | Murray | | |
| Metz Pond | Sodus | | |
| Mill Pond | Byron | | |
| Mill Pond | Bradford | | |
| Miller Pond | Elmira | | |
| Millpond | Butler | | |
| Mud Lake | Prattsburgh | | |
| Mud Lake | Wayland | | |
| Mud Pond | Lima | | |
| Mud Pond | Arcadia | | |
| Newark Reservoir | Phelps | | |
| Nunda Reservoir | Nunda | | |
| Park Station Pond | Erin | BNT RT LMB S CRA BNB CA SH RB WS YP BRK SMB | |
| Peterson Lake | Bath | | |
| Phelps Pond | Alabama | | |
| Pineway Park Pond | Ogden | LMB RB S | |
| Port Bay | Huron | BF NP CC BNB RB S SMB LMB CRA YP WP W | |
| Quaker Pond | Mendon | NP CP BNB RB S LMB CRA YP | |
| Round Lake | Bath | | |
| Round Pond | Mendon | NP CP BNB RB S LMB CRA YP | |
| Round Pond | Greece | YP S NP RB | |
| Rush Reservoir | Rush | | |
| Sanford Lake | Bath | BK CRA S BNB CP SH LMB YP | |
| Seneca Lake | Ontario County/Schuyler County/Seneca County/Yates County | BNT LT RT LLS SMB YP NP LMB W CP S CA | |
| Seven Springs Pond | Stafford | | |
| Shackleton Pond | West Bloomfield | | |
| Sheers Pond | Arcadia | | |
| Smith Pond | Howard | | |
| Sodus Bay | Sodus/Huron | LG BF NP CP CC BNB WP RB S SMB LMB CRA W YP BNT RT LLS CA | |
| South Pond | West Bloomfield | | |
| Sterling Pond | East Bloomfield | | |
| Thurston Pond | Thurston | | |
| Turtle Pond | Savannah | | |
| Upper Stafford Marsh | Oakfield | | |
| Van Cleef Lake | Seneca Falls | | |
| Van Keuren Lake | Bath | | |
| Waneta Lake | Tyrone | LMB SMB M CP YP S CRA RB BNB SH WS CA | |
| Waterport Reservoir | Carlton | NP CC BNB RB S SMB LMB CRA W YP WP CA | |
| West Branch Keuaka Lake | Yates County | | |
| West Shore Ponds | Riga | | |
| Weyer Pond | Elmira | | |
| Wildlife Marsh Pond | Sodus | | |
