| Lake | County | Latitude | Longitude |
| E Lime Lake | Bethel | 61.430691 | -155.264552 |
| E Papoose Twins Lake | Matanuska-Susitn | 61.540922 | -150.070313 |
| East Arm | Kodiak Island | 57.712360 | -153.475568 |
| East Bight | Aleutians East | 55.099130 | -159.922477 |
| East Sunshine Lake | Matanuska-Susitn | 62.180072 | -150.041725 |
| Eavok Lake | Northwest Arctic | 66.810678 | -161.431534 |
| Edes Lake | Matanuska-Susitn | 63.325816 | -149.100772 |
| Edgecombe Lake | Prince of Wales- | 55.119426 | -131.498519 |
| Edmonds Lake | Anchorage | 61.432918 | -149.388239 |
| Eevook Lake | Kenai Peninsula | 60.598286 | -150.835604 |
| Eider Lake | Kenai Peninsula | 60.823882 | -150.440199 |
| Ekalgruak Lake | North Slope | 70.966205 | -156.390312 |
| Ekichuk Lake | Northwest Arctic | 66.979581 | -161.597225 |
| Eklutna Lake | Anchorage | 61.374150 | -149.069205 |
| Eldorado Narrows | Kenai Peninsula | 59.935358 | -149.342075 |
| Eleanor Cove | Yakutat | 59.703807 | -139.516113 |
| Elephant Lake | Kodiak Island | 57.771051 | -152.329560 |
| Elfin Cove | Skagway-Hoonah-A | 58.196259 | -136.349591 |
| Eliza Lake | Skagway-Hoonah-A | 57.187635 | -134.338744 |
| Elizabeth Lake | Lake and Peninsu | 57.401291 | -156.885801 |
| Elks Lake | Matanuska-Susitn | 61.702796 | -149.043408 |
| Ell Cove | Sitka | 57.202674 | -134.843473 |
| Elongozhik Slough | Wade Hampton | 63.161333 | -164.202279 |
| Elusive Lake | North Slope | 68.653553 | -148.488167 |
| Emaiksoun Lake | North Slope | 71.241456 | -156.774293 |
| Emerald Lake | Lake and Peninsu | 59.304329 | -154.753930 |
| Emil Lake | Matanuska-Susitn | 62.100383 | -149.985913 |
| Emile Lake | Yukon-Koyukuk | 66.538485 | -145.119553 |
| Emmons Lake | Aleutians East | 55.318356 | -162.078243 |
| Encelewski Lake | Kenai Peninsula | 60.256129 | -151.309246 |
| Endicott Arm | Skagway-Hoonah-A | 57.633579 | -133.240038 |
| Endicott Lake | Haines | 58.824996 | -135.681867 |
| Engineer Lake | Wade Hampton | 61.727773 | -161.823628 |
| Ermine Lake | Matanuska-Susitn | 62.821057 | -149.917961 |
| Essowah Lake | Prince of Wales- | 54.786531 | -132.861450 |
| Esther Lake | Valdez-Cordova | 60.827506 | -148.068847 |
| Esussaylnin Lakes | Yukon-Koyukuk | 66.148827 | -149.619212 |
| Etienne Lake | Aleutians West | 52.929665 | 172.663376 |
| Etivlik Lake | North Slope | 68.125823 | -156.077641 |
| Evan Lake | Yukon-Koyukuk | 65.854153 | -156.634939 |
| Evelyn Lake | Juneau | 58.854534 | -134.955083 |
| Evrulivik Lake | North Slope | 71.027314 | -156.681156 |
| Exchange Cove | Prince of Wales- | 56.196183 | -133.080418 |
| Exchange Lake | Prince of Wales- | 56.170406 | -133.126169 |
| Explorer Basin | Wrangell-Petersb | 56.443328 | -134.212941 |
| Eyak Lake | Valdez-Cordova | 60.558439 | -145.680292 |