| Place | Lane | Name | School | Time | Heat | Heat Place |
| 1 | 5 | Peter Wolfram | Piedmont Hills | 49.26 | 4 | 1 |
| 2 | 4 | Joe Luttrell | Scotts Valley High School | 49.31 | 3 | 1 |
| 3 | 4 | Justin Teng | Lynbrook High School | 49.40 | 4 | 2 |
| 4 | 4 | Don Gaspar | Los Gatos High School | 49.71 | 1 | 1 |
| 5 | 5 | Jesse Rice | San Benito Hollister HS | 50.12 | 2 | 1 |
| 6 | 5 | Maurice Bates | Aragon High School | 50.28 | 3 | 2 |
| 7 | 3 | Terez Canty | Oak Grove | 50.29 | 3 | 3 |
| 8 | 3 | Daniel Bell | Jefferson High School | 50.45 | 4 | 3 |
| 9 | 3 | Alex Harvin | Monterey High School | 50.60 | 1 | 2 |
| 10 | 5 | Jacque Winder | Riordan High School | 50.99 | 1 | 3 |
| 11 | 7 | Terry Gross | Oak Grove | 51.06 | 1 | 4 |
| 12 | 2 | Carlos Gacula | Westmoor High School | 51.31 | 1 | 5 |
| 13 | 6 | J.J. Layman | Bellarmine College Prep | 51.38 | 3 | 4 |
| 14 | 3 | Ben Bubenheim | Junipero Serra High Schoo | 51.47 | 2 | 2 |
| 15 | 4 | Reggie Topps | North Monterey County | 51.52 | 2 | 3 |
| 16 | 6 | Oliver Shabram | Carmel High School | 51.63 | 1 | 6 |
| 17 | 8 | Moses Martinez | Mt. Pleasant | 51.68 | 4 | 4 |
| 18 | 6 | Jason Anthony | Homestead High School | 51.69 | 4 | 5 |
| 19 | 6 | Philip Saneski | Cupertino High School | 51.88 | 2 | 4 |
| 20 | 2 | Evan Nottage | Los Altos High School | 51.91 | 3 | 5 |
| 21 | 2 | Michael Fox | San Mateo High School | 51.97 | 4 | 6 |
| 22 | 7 | Alex Ellinwood | Leigh | 51.98 | 3 | 6 |
| 23 | 7 | James Nicholson | Los Altos High School | 52.01 | 2 | 5 |
| 24 | 1 | John Raquinio | Santa Teresa High School | 52.17 | 1 | 7 |
| 25 | 1 | Cortrez Lewis | North Salinas High School | 52.49 | 2 | 6 |
| 26 | 1 | Francisco Cortez | Yerba Buena | 52.68 | 4 | 7 |
| 27 | 7 | Charles Wetherell | Menlo School | 53.39 | 4 | 8 |
| 28 | 2 | Jorge Gonzalez | Evergreen Valley | 53.66 | 2 | 7 |
| 29 | 1 | Kyle Coulter | Aptos High School | 54.16 | 3 | 7 |