| Offensive Starters | | | | | |
|---|
| QB | Jim Harbaugh | 36 | 12 | 12 | 249 for 434, 2,761 yards, 10 td, 14 int, & 34 rushes for 126 yards and 0 td | |
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| RB | Natrone Means | 27 | 6 | 5 | 112 rushes for 277 yards, 4 td, & 9 catches for 51 yards and 1 td | |
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| FB | Fred McCrary | 27 | 4 | 14 | 0 rushes for yards, 0 td, & 37 catches for 201 yards and 1 td | |
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| WR | Jeff Graham | 30 | 8 | 11 | 57 catches for 968 yards, 2 td | |
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| WR | Mikhael Ricks | 25 | 1 | 15 | 40 catches for 429 yards, 0 td, & 2 rushes for 11 yards and 0 td | |
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| TE | Freddie Jones | 25 | 2 | 16 | 56 catches for 670 yards, 2 td | |
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| LT | John Jackson | 34 | 11 | 15 | | |
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| LG | Aaron Taylor | 27 | 4 | 14 | | |
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| C | Roman Fortin | 32 | 8 | 16 | 2 fumbles recovered | |
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| RG | DeMingo Graham | 26 | 1 | 10 | | |
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| RT | Vaughn Parker | 28 | 5 | 15 | 1 fumble recovered | |
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| Defensive Starters | | | | | |
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| LDE | Albert Fontenot | 29 | 6 | 15 | 5.0 sacks, 0 interceptions, 1 fumble recovered | |
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| LDT | Norman Hand | 27 | 3 | 14 | 4.0 sacks, 0 interceptions, 0 fumbles recovered | |
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| RDT | John Parrella | 30 | 6 | 16 | 5.5 sacks, 0 interceptions, 0 fumbles recovered | |
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| RDE | Raylee Johnson | 29 | 6 | 16 | 10.5 sacks, 0 interceptions, 1 fumble recovered | |
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| LLB | Lewis Bush | 30 | 6 | 14 | 1.0 sacks, 0 interceptions, 1 fumble recovered | |
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| MLB | Eric Hill | 33 | 10 | 10 | | |
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| RLB | Junior Seau* | 30 | 9 | 14 | 3.5 sacks, 1 interception, 1 fumble recovered | |
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| LCB | Darryll Lewis | 31 | 8 | 8 | 0.0 sacks, 4 interceptions, 2 fumbles recovered | |
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| RCB | Terrance Shaw | 26 | 4 | 8 | | |
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| SS | Greg Jackson | 33 | 10 | 9 | 0.0 sacks, 0 interceptions, 1 fumble recovered | |
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| FS | Mike Dumas | 30 | 8 | 14 | 2.0 sacks, 2 interceptions, 0 fumbles recovered | |
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Roster