Franchise 77 seasons 563–571–9 all-time 20 playoff trips 1 Super Bowls
1993 players
Passing
| Jim Harbaugh | 325 | 200 | 2,002 | 7 | 11 | 6.2 |
| Peter Tom Willis | 60 | 30 | 268 | 0 | 5 | 4.5 |
| Chris Gardocki | 2 | 0 | 0 | 0 | 0 | 0.0 |
| Neal Anderson | 1 | 0 | 0 | 0 | 0 | 0.0 |
Rushing
| Neal Anderson | 202 | 646 | 4 | 3.2 |
| Jim Harbaugh | 60 | 277 | 4 | 4.6 |
| Craig Heyward | 68 | 206 | 0 | 3.0 |
| Curtis Conway | 5 | 44 | 0 | 8.8 |
| Robert Green | 15 | 29 | 0 | 1.9 |
| Bob Christian | 8 | 19 | 0 | 2.4 |
| Darren Lewis | 7 | 13 | 0 | 1.9 |
| Peter Tom Willis | 2 | 6 | 0 | 3.0 |
Receiving
| Tom Waddle | 72 | 44 | 552 | 1 | 7.7 |
| Terry Obee | 46 | 26 | 351 | 3 | 7.6 |
| Curtis Conway | 42 | 19 | 231 | 2 | 5.5 |
| Neal Anderson | 48 | 31 | 160 | 0 | 3.3 |
| Bob Christian | 24 | 16 | 160 | 0 | 6.7 |
| Keith Jennings | 17 | 14 | 150 | 0 | 8.8 |
| Wendell Davis | 20 | 12 | 132 | 0 | 6.6 |
| Craig Heyward | 21 | 16 | 132 | 0 | 6.3 |
| Chris Gedney | 17 | 10 | 98 | 0 | 5.8 |
| Ryan Wetnight | 18 | 9 | 93 | 1 | 5.2 |
| Robert Green | 18 | 13 | 63 | 0 | 3.5 |
| Danta Whitaker | 9 | 6 | 53 | 0 | 5.9 |
| Darren Lewis | 5 | 4 | 26 | 0 | 5.2 |
| Jim Harbaugh | 1 | 1 | 1 | 0 | 1.0 |
Defense
| Dante Jones | MLB | 189 | 189 | 1.0 | 4 | 1 |
| Shaun Gayle | SS | 124 | 124 | 1.0 | 0 | 0 |
| Chris Zorich | RDT | 121 | 121 | 7.0 | 0 | 1 |
| Joe Cain | LLB | 108 | 108 | 0.0 | 0 | 1 |
| Donnell Woolford | LCB | 101 | 101 | 0.0 | 2 | 1 |
| Mark Carrier | FS | 91 | 91 | 0.0 | 4 | 0 |
| Vinson Smith | RLB | 83 | 83 | 0.0 | 0 | 0 |
| Steve McMichael | LDT | 78 | 78 | 6.0 | 1 | 0 |
| Richard Dent | RDE | 64 | 64 | 12.5 | 1 | 1 |
| Maurice Douglass | DB | 62 | 62 | 0.0 | 0 | 0 |
| Trace Armstrong | LDE | 58 | 58 | 11.5 | 0 | 4 |
| John Mangum | DB | 38 | 38 | 0.0 | 1 | 0 |
| Jeremy Lincoln | RCB | 37 | 37 | 0.0 | 3 | 0 |
| Ron Cox | LB | 33 | 33 | 2.0 | 0 | 2 |
| Alonzo Spellman | DE | 28 | 28 | 2.5 | 0 | 1 |
| Myron Baker | LB | 23 | 23 | 0.0 | 0 | 1 |
| Carl Simpson | DT | 7 | 7 | 0.5 | 0 | 0 |
| Keshon Johnson | DB | 5 | 5 | 0.0 | 0 | 0 |
| Albert Fontenot | DE | 4 | 4 | 1.0 | 0 | 1 |
| Kevin Miniefield | DB | 2 | 2 | 0.0 | 0 | 1 |