Franchise 58 seasons 473–417–7 all-time 23 playoff trips 3 Super Bowls
1993 players
Passing
| Joe Montana | 298 | 181 | 2,144 | 13 | 7 | 7.2 |
| Dave Krieg | 189 | 105 | 1,238 | 7 | 3 | 6.6 |
| Matt Blundin | 3 | 1 | 2 | 0 | 0 | 0.7 |
Rushing
| Marcus Allen | 206 | 764 | 12 | 3.7 |
| Kimble Anders | 75 | 291 | 0 | 3.9 |
| Todd McNair | 51 | 278 | 2 | 5.5 |
| John Stephens | 54 | 191 | 1 | 3.5 |
| Harvey Williams | 42 | 149 | 0 | 3.5 |
| Joe Montana | 25 | 64 | 0 | 2.6 |
| Fred Jones | 5 | 34 | 0 | 6.8 |
| Ernie Thompson | 11 | 28 | 0 | 2.5 |
| Dave Krieg | 21 | 24 | 0 | 1.1 |
| Tim Barnett | 1 | 3 | 0 | 3.0 |
| Dale Carter | 1 | 2 | 0 | 2.0 |
| Keith Cash | 1 | 0 | 0 | 0.0 |
Receiving
| Willie Davis | 101 | 52 | 909 | 7 | 9.0 |
| J.J. Birden | 87 | 51 | 721 | 2 | 8.3 |
| Jonathan Hayes | 38 | 24 | 331 | 1 | 8.7 |
| Kimble Anders | 56 | 40 | 326 | 1 | 5.8 |
| Keith Cash | 34 | 24 | 242 | 4 | 7.1 |
| Marcus Allen | 46 | 34 | 238 | 3 | 5.2 |
| Tim Barnett | 33 | 17 | 182 | 1 | 5.5 |
| Fred Jones | 19 | 9 | 111 | 0 | 5.8 |
| Hassan Jones | 13 | 7 | 91 | 0 | 7.0 |
| Todd McNair | 15 | 10 | 74 | 0 | 4.9 |
| Harvey Williams | 9 | 7 | 42 | 0 | 4.7 |
| Ernie Thompson | 5 | 4 | 33 | 0 | 6.6 |
| John Stephens | 8 | 5 | 31 | 0 | 3.9 |
| Joe Valerio | 1 | 1 | 1 | 1 | 1.0 |
Defense
| Tracy Simien | LILB | 105 | 105 | 0.0 | 0 | 0 |
| Kevin Ross | FS/RCB | 102 | 102 | 0.5 | 2 | 1 |
| Tracy Rogers | LOLB | 94 | 94 | 0.0 | 0 | 1 |
| Martin Bayless | SS | 90 | 90 | 1.0 | 2 | 2 |
| Dave Whitmore | FS | 81 | 81 | 0.0 | 0 | 1 |
| Lonnie Marts | RILB | 73 | 73 | 2.0 | 1 | 6 |
| Dan Saleaumua | RDE | 61 | 61 | 3.5 | 1 | 1 |
| Albert Lewis | LCB | 56 | 56 | 0.0 | 6 | 1 |
| Neil Smith | LDE | 55 | 55 | 15.0 | 1 | 5 |
| Doug Terry | SS | 54 | 54 | 1.0 | 1 | 0 |
| Joe Phillips | NT | 45 | 45 | 1.5 | 0 | 0 |
| Charles Mincy | DB | 43 | 43 | 0.0 | 5 | 0 |
| Derrick Thomas | ROLB | 43 | 43 | 8.0 | 0 | 4 |
| Bennie Thompson | DB | 26 | 26 | 0.5 | 0 | 0 |
| Darren Mickell | DE | 21 | 21 | 1.0 | 0 | 2 |
| Bruce Pickens | DB | 18 | 18 | 0.0 | 0 | 0 |
| Jay Taylor | DB | 13 | 13 | 0.0 | 1 | 0 |
| Erick Anderson | LB | 10 | 10 | 0.0 | 0 | 1 |
| Jaime Fields | LB | 9 | 9 | 0.0 | 0 | 0 |
| Pellom McDaniels | DE | 8 | 8 | 0.0 | 0 | 0 |
| Tim Newton | DT | 0 | 0 | 1.0 | 0 | 0 |