Franchise 77 seasons 563–571–9 all-time 20 playoff trips 1 Super Bowls
1989 players
Passing
| Mike Tomczak | 306 | 156 | 2,058 | 16 | 16 | 6.7 |
| Jim Harbaugh | 178 | 111 | 1,204 | 5 | 9 | 6.8 |
Rushing
| Neal Anderson | 274 | 1,275 | 11 | 4.7 |
| Brad Muster | 82 | 327 | 5 | 4.0 |
| Jim Harbaugh | 45 | 276 | 3 | 6.1 |
| Thomas Sanders | 41 | 127 | 0 | 3.1 |
| Dennis Gentry | 17 | 106 | 0 | 6.2 |
| Mike Tomczak | 24 | 71 | 1 | 3.0 |
| Matt Suhey | 20 | 51 | 1 | 2.6 |
| Mark Green | 5 | 46 | 1 | 9.2 |
| Brian Taylor | 2 | 7 | 0 | 3.5 |
| Maury Buford | 1 | 6 | 0 | 6.0 |
| Dennis McKinnon | 3 | 5 | 0 | 1.7 |
| James Thornton | 1 | 4 | 0 | 4.0 |
| Ron Morris | 1 | -14 | 0 | -14.0 |
Receiving
| Ron Morris | 68 | 30 | 486 | 1 | 7.1 |
| Dennis Gentry | 68 | 39 | 463 | 1 | 6.8 |
| Neal Anderson | 68 | 50 | 434 | 4 | 6.4 |
| Dennis McKinnon | 66 | 28 | 418 | 3 | 6.3 |
| Wendell Davis | 56 | 26 | 397 | 3 | 7.1 |
| James Thornton | 39 | 24 | 392 | 3 | 10.1 |
| Brad Muster | 48 | 32 | 259 | 3 | 5.4 |
| Cap Boso | 25 | 17 | 182 | 1 | 7.3 |
| Glen Kozlowski | 9 | 3 | 74 | 0 | 8.2 |
| Matt Suhey | 12 | 9 | 73 | 1 | 6.1 |
| Mark Green | 6 | 5 | 48 | 0 | 8.0 |
| Thomas Sanders | 6 | 3 | 28 | 1 | 4.7 |
| Tom Waddle | 1 | 1 | 8 | 0 | 8.0 |
Defense
| Shaun Gayle | FS | 108 | 108 | 0.0 | 3 | 1 |
| Steve McMichael | LDT | 108 | 108 | 7.5 | 0 | 1 |
| Trace Armstrong | LDE | 80 | 80 | 5.0 | 0 | 1 |
| Richard Dent | RDE | 70 | 70 | 9.0 | 1 | 2 |
| William Perry | RDT | 61 | 61 | 4.0 | 0 | 3 |
| David Tate | DB | 60 | 60 | 0.0 | 1 | 0 |
| Donnell Woolford | LCB | 56 | 56 | 0.0 | 3 | 0 |
| Lorenzo Lynch | DB | 38 | 38 | 0.0 | 3 | 0 |
| Dante Jones | LB | 28 | 28 | 0.0 | 0 | 0 |
| Maurice Douglass | DB | 23 | 23 | 0.0 | 1 | 1 |
| John Roper | RLB | 0 | 0 | 4.5 | 2 | 2 |
| Ron Rivera | LLB | 0 | 0 | 2.0 | 2 | 0 |
| Mike Singletary | MLB | 0 | 0 | 1.0 | 0 | 2 |
| Dick Chapura | DT | 0 | 0 | 3.0 | 0 | 0 |
| Dan Hampton | DT | 0 | 0 | 2.0 | 0 | 0 |
| Tony Woods | DT | 0 | 0 | 1.0 | 0 | 0 |