| Year | Team | G | W | L | T | Pct | Pos | PF | PA | SHO | O-Rank | D-Rank | Notes |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 1998 | San Francisco 49ers | 16 | 11 | 5 | 0 | 0.688 | 2 | 398 | 321 | 0 | 6-4-6 | 6-12-4 | |
| 1999 | San Francisco 49ers | 16 | 11 | 5 | 0 | 0.688 | 2 | 550 | 325 | 1 | 1-7-1 | 8-6-6 | |
| 2000 | San Francisco 49ers | 16 | 10 | 6 | 0 | 0.625 | 2 | 435 | 347 | 0 | 12-17-16 | 5-13-6 | |
| 2001 | San Francisco 49ers | 16 | 9 | 7 | 0 | 0.563 | 3 | 341 | 360 | 1 | 12-17-14 | 17-23-19 | |
| 2002 | San Francisco 49ers | 16 | 8 | 8 | 0 | 0.500 | 5 | 361 | 342 | 0 | 8-14-12 | 7-18-12 | |
| 2003 | San Francisco 49ers | 16 | 9 | 7 | 0 | 0.563 | 3 | 398 | 348 | 0 | 10-16-13 | 2-14-6 | |
| 2004 | San Francisco 49ers | 16 | 9 | 7 | 0 | 0.563 | 3 | 343 | 340 | 0 | 9-29-17 | 11-24-18 | |
| 2005 | San Francisco 49ers | 16 | 12 | 4 | 0 | 0.750 | 2 | 410 | 259 | 1 | 11-5-8 | 1-16-2 | |
| 2006 | San Francisco 49ers | 16 | 12 | 4 | 0 | 0.750 | 2 | 404 | 276 | 2 | 18-5-11 | 14-6-10 | |
| 2007 | San Francisco 49ers | 16 | 8 | 8 | 0 | 0.500 | 2 | 285 | 317 | 0 | 28-6-21 | 17-18-19 | |
| 2008 | San Francisco 49ers | 16 | 4 | 11 | 1 | 0.250 | 4 | 293 | 396 | 0 | 15-13-15 | 11-18-17 | |
| 2009 | San Francisco 49ers | 16 | 10 | 6 | 0 | 0.625 | 2 | 400 | 357 | 0 | 4-4-4 | 12-16-15 | |
| 2010 | San Francisco 49ers | 16 | 7 | 9 | 0 | 0.438 | 3 | 346 | 406 | 1 | 7-11-8 | 11-15-15 | |
| 2011 | San Francisco 49ers | 16 | 10 | 6 | 0 | 0.625 | 2 | 404 | 306 | 0 | 6-6-4 | 13-8-12 | |
| 2012 | San Francisco 49ers | 16 | 10 | 6 | 0 | 0.625 | 2 | 410 | 313 | 1 | 11-2-5 | 6-13-7 | |
| 2013 | San Francisco 49ers | 16 | 15 | 1 | 0 | 0.938 | 1 | 443 | 281 | 0 | 5-1-1 | 5-8-4 | |
| 2014 | San Francisco 49ers | 16 | 12 | 4 | 0 | 0.750 | 1 | 401 | 295 | 0 | 13-1-8 | 7-9-7 | |
| 2015 | San Francisco 49ers | 16 | 9 | 7 | 0 | 0.563 | 4 | 373 | 289 | 0 | 16-1-9 | 1-12-3 | |
| 2016 | San Francisco 49ers | 16 | 11 | 5 | 0 | 0.688 | 2 | 362 | 344 | 0 | 14-1-6 | 1-12-3 | |
| 2017 | San Francisco 49ers | 16 | 11 | 5 | 0 | 0.688 | 2 | 351 | 270 | 0 | 13-1-5 | 5-17-7 | |
| 2018 | San Francisco 49ers | 16 | 14 | 2 | 0 | 0.875 | 1 | 469 | 291 | 0 | 13-1-8 | 1-5-1 | |
| 2019 | San Francisco 49ers | 16 | 9 | 7 | 0 | 0.563 | 2 | 336 | 327 | 0 | 16-1-13 | 2-15-3 | |
| 2020 | San Francisco 49ers | 16 | 9 | 7 | 0 | 0.563 | 3 | 407 | 339 | 0 | 16-4-11 | 7-11-9 | |
| 2021 | San Francisco 49ers | 16 | 12 | 4 | 0 | 0.750 | 1 | 415 | 304 | 0 | 16-2-6 | 2-6-4 | |
| 2022 | San Francisco 49ers | 16 | 9 | 7 | 0 | 0.563 | 2 | 364 | 323 | 0 | 12-6-12 | 16-3-14 | |
| 2023 | San Francisco 49ers | 16 | 8 | 8 | 0 | 0.500 | 3 | 339 | 358 | 0 | 16-3-15 | 7-7-8 | |
| 2024 | San Francisco 49ers | 16 | 5 | 11 | 0 | 0.313 | 5 | 358 | 470 | 0 | 15-4-13 | 6-18-13 | |
| 2025 | San Francisco 49ers | 16 | 9 | 7 | 0 | 0.563 | 2 | 368 | 347 | 0 | 13-6-12 | 1-14-5 | |
| 2026 | San Francisco 49ers | 16 | 13 | 3 | 0 | 0.813 | 2 | 416 | 306 | 0 | 12-7-9 | 10-9-9 | |
| 2027 | San Francisco 49ers | 16 | 9 | 7 | 0 | 0.563 | 3 | 332 | 312 | 0 | 8-7-5 | 4-16-11 | |
| 2028 | San Francisco 49ers | 16 | 11 | 5 | 0 | 0.688 | 1 | 343 | 332 | 0 | 10-8-9 | 8-8-9 | |
| 2029 | San Francisco 49ers | 16 | 9 | 7 | 0 | 0.563 | 2 | 297 | 281 | 0 | 4-12-6 | 6-9-9 | |
| 2030 | San Francisco 49ers | 16 | 3 | 13 | 0 | 0.188 | 5 | 258 | 415 | 0 | 16-11-15 | 9-17-14 | |
| 2031 | San Francisco 49ers | 16 | 14 | 2 | 0 | 0.875 | 1 | 410 | 323 | 0 | 13-7-5 | 2-15-9 | COY |
| 2032 | San Francisco 49ers | 16 | 9 | 7 | 0 | 0.563 | 2 | 439 | 379 | 0 | 1-3-1 | 3-13-3 | COY |
| 2033 | San Francisco 49ers | 16 | 8 | 8 | 0 | 0.500 | 2 | 382 | 377 | 1 | 5-6-4 | 6-5-4 | |
| 2034 | San Francisco 49ers | 16 | 8 | 8 | 0 | 0.500 | 2 | 382 | 385 | 0 | 8-12-8 | 11-17-17 | |
| 2035 | San Francisco 49ers | 16 | 8 | 8 | 0 | 0.500 | 2 | 364 | 381 | 0 | 13-11-13 | 2-15-6 | |
| 2036 | San Francisco 49ers | 16 | 6 | 10 | 0 | 0.375 | 4 | 282 | 354 | 1 | 12-8-11 | 3-11-7 | |
| 2037 | San Francisco 49ers | 16 | 7 | 9 | 0 | 0.438 | 4 | 313 | 366 | 0 | 12-2-3 | 7-11-6 | |
| 2038 | San Francisco 49ers | 16 | 11 | 5 | 0 | 0.688 | 2 | 342 | 283 | 0 | 17-2-9 | 1-15-3 | |
| 2039 | San Francisco 49ers | 16 | 7 | 9 | 0 | 0.438 | 3 | 309 | 394 | 0 | 13-10-14 | 4-17-10 | |
| 2040 | San Francisco 49ers | 16 | 6 | 10 | 0 | 0.375 | 4 | 280 | 359 | 0 | 6-15-11 | 17-12-18 | |
| 2041 | San Francisco 49ers | 16 | 9 | 7 | 0 | 0.563 | 3 | 405 | 306 | 0 | 7-1-3 | 9-15-13 | |
| 2042 | San Francisco 49ers | 16 | 9 | 7 | 0 | 0.563 | 2 | 285 | 275 | 0 | 5-6-4 | 1-11-3 | |
| 2043 | San Francisco 49ers | 16 | 9 | 7 | 0 | 0.563 | 2 | 374 | 356 | 0 | 13-12-13 | 2-17-8 | |
| 2044 | San Francisco 49ers | 16 | 9 | 7 | 0 | 0.563 | 3 | 389 | 334 | 0 | 8-4-5 | 8-18-16 | |
| 2045 | San Francisco 49ers | 16 | 11 | 5 | 0 | 0.688 | 2 | 406 | 313 | 0 | 13-3-8 | 8-12-9 | |
| 2046 | San Francisco 49ers | 16 | 8 | 8 | 0 | 0.500 | 3 | 330 | 370 | 0 | 11-10-11 | 8-18-17 | |
| 2047 | San Francisco 49ers | 16 | 6 | 10 | 0 | 0.375 | 4 | 330 | 390 | 0 | 17-8-13 | 4-17-10 | |
| 2048 | San Francisco 49ers | 16 | 7 | 9 | 0 | 0.438 | 4 | 327 | 414 | 0 | 15-10-14 | 10-15-16 | |
| CAREER | 51 Seasons | 816 | 470 | 345 | 1 | 0.576 | 6× | 18759 | 17256 | 9 | — | — |