| # | Name | Rank | Elevation | Prominence | Counties | Quadrangle |
| 1 | Black Elk Peak | 1 | 7,242' | 2,932' | Pennington | Custer |
| 2 | Odakota Mountain | 2 | 7,199' | 1,327' | Pennington | Ditch Creek |
| 3 | Bear Mountain | 3 | 7,168' | 457' | Pennington | Berne |
| 4 | Terry Peak | 5 | 7,070' | 1,012' | Lawrence | Lead |
| 5 | "Sylvan Peak" | 6 | 7,001' | 769' | Custer | Custer |
| 6 | Little Devils Tower | 7 | 6,982' | 428' | Custer | Custer |
| 7 | White Tail Peak | 8 | 6,971' | 373' | Pennington | Deerfield |
| 8 | 6959 | 9 | 6,959' | 308' | Pennington | Deerfield |
| 9 | Medicine Mountain | 11 | 6,878' | 338' | Pennington | Medicine Mountain |
| 10 | 6850 | 12 | 6,850' | 348' | Pennington | Deerfield |
| 11 | 6830 | 13 | 6,830' | 320' | Lawrence | Nahant |
| 12 | Custer Peak | 14 | 6,804' | 654' | Lawrence | Minnesota Ridge |
| 13 | Hat Mountain | 15 | 6,779' | 369' | Pennington | Ditch Creek |
| 14 | 6750 | 16 | 6,750' | 320' | Custer | Signal Hill |
| 15 | 6740 | 17 | 6,740' | 400' | Pennington | Medicine Mountain |
| 16 | 6735 | 18 | 6,735' | 355' | Custer | Custer |
| 17 | 6733 | 19 | 6,733' | 313' | Custer | Custer |
| 18 | Zimmer Ridge | 20 | 6,620' | 685' | Pennington | Medicine Mountain |
| 19 | 6620 | 21 | 6,620' | 320' | Pennington | Medicine Mountain |
| 20 | Bald Mountain | 22 | 6,617' | 357' | Lawrence | Lead |
| 21 | 6500 | 23 | 6,500' | 350' | Lawrence | Lead |
| 22 | Saint Elmo Peak | 24 | 6,458' | 758' | Pennington | Custer |
| 23 | Elk Mountain | 25 | 6,422' | 362' | Lawrence | Savoy |
| 24 | Atlantic Hill | 26 | 6,393' | 373' | Custer | Berne |
| 25 | 6380 | 28 | 6,380' | 304' | Pennington | Berne |
| 26 | 6361 | 29 | 6,361' | 421' | Custer | Berne |
| 27 | Castle Peak | 30 | 6,358' | 448' | Pennington | Rochford |
| 28 | Buckhorn Mountain | 32 | 6,330' | 310' | Custer | Custer |
| 29 | 6260 | 33 | 6,260' | 800' | Custer | Cicero Peak |
| 30 | 6260 | 34 | 6,260' | 320' | Pennington | Rochford |
| 31 | Five Points | 35 | 6,221' | 601' | Pennington | Hill City |
| 32 | Ragged Top Mountain | 36 | 6,220' | 360' | Lawrence | Savoy |
| 33 | 6220 | 37 | 6,220' | 320' | Lawrence | Lead |
| 34 | 6220 | 38 | 6,220' | 320' | Pennington | Rochford |
| 35 | 6205 | 39 | 6,205' | 355' | Pennington | Minnesota Ridge |
| 36 | 6181 | 40 | 6,181' | 401' | Custer | Berne |
| 37 | 6167 | 42 | 6,167' | 507' | Pennington | Silver City |
| 38 | Cicero Peak | 43 | 6,166' | 503' | Custer | Cicero Peak |
| 39 | Union Hill | 44 | 6,140' | 440' | Pennington | Hill City |
| 40 | 6130 | 45 | 6,130' | 310' | Pennington | Hill City |
| 41 | Custer Mountain | 46 | 6,100' | 600' | Custer | Custer |
| 42 | 6070 | 47 | 6,070' | 570' | Pennington | Silver City |
| 43 | 6060 | 48 | 6,060' | 400' | Custer | Cicero Peak |
| 44 | 6060 | 50 | 6,060' | 320' | Pennington | Hill City |
| 45 | Lowden Mountain | 51 | 6,055' | 435' | Pennington | Hill City |
| 46 | 6048 | 52 | 6,048' | 428' | Pennington | Hill City |
| 47 | 6043 | 53 | 6,043' | 343' | Pennington | Silver City |
| 48 | Coolidge, Mount | 54 | 6,023' | 683' | Custer | Mount Coolidge |
| 49 | 6020 | 55 | 6,020' | 400' | Pennington | Silver City |
| 50 | 5980 | 56 | 5,980' | 320' | Lawrence | Tinton |
| 51 | 5980 | 57 | 5,980' | 320' | Pennington | Hill City |
| 52 | 5948 | 58 | 5,948' | 568' | Custer | Cicero Peak |
| 53 | Twin Sisters, North | 59 | 5,940' | 400' | Custer | Fourmile |
| 54 | Scruton Mountain | 60 | 5,922' | 342' | Pennington | Silver City |
| 55 | 5900 | 61 | 5,900' | 560' | Custer | Iron Mountain |
| 56 | 5900 | 62 | 5,900' | 480' | Custer | Fourmile |
| 57 | Needles, The | 63 | 5,900' | 320' | Lawrence | Tinton |
| 58 | Smith Mountain | 64 | 5,897' | 357' | Pennington | Hill City |
| 59 | Flag Mountain | 65 | 5,896' | 316' | Pennington | Hill City |
| 60 | "Mount Warner" | 66 | 5,889' | 949' | Pennington | Mount Rushmore |
| 61 | Little Crow Peak | 67 | 5,885' | 305' | Lawrence | Maurice |
| 62 | 5874 | 68 | 5,874' | 334' | Custer | Custer |
| 63 | 5865 | 69 | 5,865' | 325' | Pennington | Rochford |
| 64 | 5860 | 70 | 5,860' | 320' | Custer | Fourmile |
| 65 | Samelias Peak | 71 | 5,856' | 476' | Pennington | Mount Rushmore |
| 66 | 5846 | 72 | 5,846' | 369' | Custer | Fourmile |
| 67 | 5834 | 73 | 5,834' | 334' | Custer | Cicero Peak |
| 68 | Spearfish Peak | 74 | 5,820' | 400' | Lawrence | Spearfish |
| 69 | Silver Peak | 75 | 5,810' | 430' | Pennington | Silver City |
| 70 | 5802 | 76 | 5,802' | 302' | Custer | Fourmile |
| 71 | 5800 | 77 | 5,800' | 300' | Pennington | Silver City |
| 72 | 5780 | 78 | 5,780' | 400' | Pennington | Hill City |
| 73 | 5778 | 80 | 5,778' | 398' | Custer | Custer |
| 74 | Crow Peak | 81 | 5,771' | 911' | Lawrence | Maurice |
| 75 | 5741 | 82 | 5,741' | 361' | Pennington | Mount Rushmore |
| 76 | 5733 | 83 | 5,733' | 433' | Custer | Iron Mountain |
| 77 | Humbolt Mountain | 85 | 5,722' | 462' | Pennington | Hill City |
| 78 | 5707 | 86 | 5,707' | 417' | Pennington | Silver City |
| 79 | Bishop Mountain | 87 | 5,706' | 326' | Pennington | Hill City |
| 80 | Woodpecker Ridge | 88 | 5,700' | 600' | Custer | Iron Mountain |
| 81 | Theodore Roosevelt, Mount | 89 | 5,700' | 360' | Lawrence | Spearfish |
| 82 | 5696 | 90 | 5,696' | 396' | Pennington | Silver City |
| 83 | Crystal Mountain | 91 | 5,690' | 340' | Lawrence | Nemo |
| 84 | 5688 | 92 | 5,688' | 388' | Custer | Iron Mountain |
| 85 | Elk Mountains (HP) | 93 | 5,669' | 839' | Custer | Clifton |
| 86 | Storm Hill | 95 | 5,656' | 516' | Pennington | Hill City |
| 87 | Summit Peak | 96 | 5,655' | 515' | Pennington | Hill City |
| 88 | 5647 | 97 | 5,647' | 387' | Custer | Iron Mountain |
| 89 | Bear Den Mountain | 98 | 5,642' | 382' | Lawrence | Deadwood South |
| 90 | 5604 | 100 | 5,604' | 384' | Custer | Cicero Peak |