| # | Name | Rank | Elevation | Prominence | Counties | Quadrangle |
| 1 | Spangler Peak | 1,984' | 174' | San Diego | Ramona | |
| 2 | Stanley Peak | 9321 | 1,983' | 433' | San Diego | Valley Center |
| 3 | 1958 | 9372 | 1,958' | 538' | San Diego | Alpine |
| 4 | 1953 | 9377 | 1,953' | 643' | San Diego | Jamul Mountains |
| 5 | 1953 | 9378 | 1,953' | 413' | San Diego | Otay Mountain |
| 6 | Gorge Benchmark | 9419 | 1,940' | 360' | Imperial | In-Ko-Pah Gorge |
| 7 | Windy Hill | 1,940' | 160' | San Mateo | Mindego Hill | |
| 8 | 1939 | 9423 | 1,939' | 359' | San Diego | Sweeney Pass |
| 9 | 1930 | 9440 | 1,930' | 540' | San Diego | San Pasqual |
| 10 | Mortero Benchmark | S | 1,910' | 290' | San Diego | Sweeney Pass |
| 11 | Dehesa Benchmark | 9487 | 1,904' | 484' | San Diego | Alpine |
| 12 | 1870 | 9553 | 1,870' | 340' | San Diego | Ramona |
| 13 | Mine Benchmark | 9593 | 1,850' | 670' | San Diego | Sweeney Pass |
| 14 | 1833 | 9629 | 1,833' | 333' | San Diego | Alpine |
| 15 | Cahuenga Peak | 9651 | 1,820' | 1,030' | Los Angeles | Burbank |
| 16 | 1783 | 9735 | 1,783' | 363' | San Diego | Alpine |
| 17 | Merriam Mountains (HP) | 9802 | 1,752' | 722' | San Diego | San Marcos |
| 18 | 1750 | 9804 | 1,750' | 560' | San Diego | Otay Mesa |
| 19 | Perpendicular Bluff | 1,741' | 81' | San Diego | Borrego Sink | |
| 20 | Red Hill | 1,740' | 240' | San Diego | Sweeney Pass | |
| 21 | Whitney, Mount | 9846 | 1,736' | 1,046' | San Diego | Rancho Santa Fe |
| 22 | Tombstone Peak | 1,730' | 220' | San Diego | Valley Center | |
| 23 | Goat Peak | 1,728' | 108' | San Diego | San Vicente Reservoir | |
| 24 | Split Mountain | 9904 | 1,700' | 440' | San Diego | Harper Canyon |
| 25 | 1700 | S | 1,700' | 280' | San Diego | San Vicente Reservoir |
| 26 | Groucho Benchmark | S | 1,700' | 280' | San Diego | San Vicente Reservoir |
| 27 | "Split Mountain" | 1,700' | 160' | San Diego | Borrego Mountain SE | |
| 28 | "Burbank Peak" | 1,700' | 40' | Los Angeles | Burbank | |
| 29 | Lee, Mount | 1,700' | 40' | Los Angeles | Burbank | |
| 30 | "Split Mountain East" | 1,690' | 150' | Imperial | Borrego Mountain SE | |
| 31 | Franks Peak | 1,688' | 238' | San Diego | Rancho Santa Fe | |
| 32 | San Marcos Mountains (HP) | 9961 | 1,671' | 661' | San Diego | San Marcos |
| 33 | Old Rocky Peak | 1,670' | 100' | San Diego | Valley Center | |
| 34 | 1662 | 9974 | 1,662' | 322' | Imperial | Carrizo Mountain |
| 35 | Double Peak | 10011 | 1,644' | 474' | San Diego | Rancho Santa Fe |
| 36 | 1602 | 10084 | 1,602' | 372' | San Diego | San Marcos |
| 37 | Cowles Mountain | 10096 | 1,591' | 1,001' | San Diego | La Mesa |
| 38 | Devils Anvil Peak | 1,590' | 60' | San Diego | Valley Center | |
| 39 | Honey Benchmark | 10122 | 1,580' | 320' | San Diego | Dulzura |
| 40 | Monserate Mountain | 10142 | 1,567' | 617' | San Diego | Bonsall |
| 41 | Black Mountain | 10165 | 1,552' | 922' | San Diego | Poway |
| 42 | Mother Miguel Mountain | 10231 | 1,527' | 457' | San Diego | Jamul Mountains |
| 43 | 1525 | 10236 | 1,525' | 475' | San Diego | Jamul Mountains |
| 44 | Ode Benchmark | 1,510' | 90' | San Diego | Borrego Palm Canyon | |
| 45 | Round Granite Hill | 1,502' | 162' | San Diego | Borrego Sink | |
| 46 | 1492 | 10307 | 1,492' | 432' | San Diego | Otay Mountain |
| 47 | Jamul Butte | 10396 | 1,448' | 308' | San Diego | Dulzura |
| 48 | "Pyles Peak" | 1,379' | 189' | San Diego | La Mesa | |
| 49 | Helix, Mount | 10513 | 1,373' | 711' | San Diego | El Cajon |
| 50 | 1358 | 10525 | 1,358' | 338' | San Diego | Jamul Mountains |
| 51 | Cerro de las Posas | 1,350' | 180' | San Diego | Rancho Santa Fe | |
| 52 | "Mount Israel" | 10542 | 1,346' | 416' | San Diego | Rancho Santa Fe |
| 53 | Pine Mountain | 10586 | 1,327' | 477' | San Luis Obispo | Atascadero |
| 54 | San Bruno Mountain | 10601 | 1,314' | 1,127' | San Mateo | San Francisco South |
| 55 | Twin Peaks | 10610 | 1,306' | 496' | San Diego | Poway |
| 56 | 1302 | 10613 | 1,302' | 492' | San Diego | San Marcos |
| 57 | Fonts Point | 10629 | 1,294' | 314' | San Diego | Fonts Point |
| 58 | Fortuna Mountain | 10632 | 1,291' | 421' | San Diego | La Mesa |
| 59 | Mesa, The | 1,281' | 181' | San Diego | Alpine | |
| 60 | 1220 | 10737 | 1,220' | 320' | San Diego | Dulzura |
| 61 | Inspiration Point | 1,211' | 31' | San Diego | Fonts Point | |
| 62 | West Butte | 10754 | 1,207' | 507' | San Diego | Borrego Mountain |
| 63 | 1198 | 10768 | 1,198' | 548' | San Diego | El Cajon |
| 64 | East Butte | 10771 | 1,194' | 534' | San Diego | Borrego Mountain |
| 65 | "Kwaay Paay Peak" | 10772 | 1,194' | 444' | San Diego | La Mesa |
| 66 | 1190 | 10778 | 1,190' | 500' | San Diego | Escondido |
| 67 | 1184 | 10787 | 1,184' | 474' | San Diego | El Cajon |
| 68 | Bernardo Mountain | 10829 | 1,150' | 440' | San Diego | Escondido |
| 69 | Van Dam Peak | 10875 | 1,113' | 403' | San Diego | Poway |
| 70 | 1108 | S | 1,108' | 288' | San Diego | El Cajon |
| 71 | "South Fortuna Mountain" | 1,094' | 204' | San Diego | La Mesa | |
| 72 | Dictionary Hill | 10918 | 1,064' | 494' | San Diego | Jamul Mountains |
| 73 | Cranes Peak | 1,054' | 104' | San Diego | San Pasqual | |
| 74 | "Denk Mountain" | 10937 | 1,050' | 520' | San Diego | Rancho Santa Fe |
| 75 | Cloverdale Benchmark | 10982 | 1,017' | 387' | San Diego | Escondido |