| Northern | ||||||||||||||
| Rk | Team | Affiliate | W | L | Pct | Gbl | RF | RA | Manager | Stadium | Attendance | Top Batter | Top Pitcher | Playoffs |
| Bakersfield Blaze | TB | 71 | 69 | .507 | 6.0 | 677 | 668 | Charlie Montoyo | Sam Lynn Ballpark | 0 | Matt Diaz (5) | Enger Veras (11) | Lost in 2nd Round | |
| 1 | San Jose Giants ** | SF | 77 | 63 | .550 | -- | 667 | 686 | Lenn Sakata | San Jose Municipal Stadiu | 145,225 | Tim Flaherty (11) | Vance Cozier (3) | Co-League Champions |
| 2 | Mudville Nine | CIN | 74 | 66 | .529 | 3.0 | 623 | 618 | Dave Oliver | Billy Hebert Field | 71,869 | Mark Burnett (22) | Brett Gray (9) | Lost in Semi-Finals |
| 4 | Visalia Oaks | OAK | 61 | 79 | .436 | 16.0 | 763 | 796 | Juan Navarette | Recreation Park | 55,232 | Matt Bowser (3) | Wayne Nix (4) | |
| 5 | Modesto A's | OAK | 55 | 85 | .393 | 22.0 | 665 | 721 | Greg Sparks | John Thurman Field | 141,337 | Matt Howe (10) | Denny Wagner (8) | |
| Southern | ||||||||||||||
| Rk | Team | Affiliate | W | L | Pct | Gbl | RF | RA | Manager | Stadium | Attendance | Top Batter | Top Pitcher | Playoffs |
| 1 | Lake Elsinore Storm ** | SD | 91 | 49 | .650 | -- | 683 | 534 | Craig Colbert | Lake Elsinore Diamond | 223,712 | Xavier Nady (1) | Chris Rojas (5) | Co-League Champions |
| 2 | San Bernardino Stampede | SEA | 76 | 64 | .543 | 15.0 | 689 | 598 | Daren Brown | Arrowhead Credit Union Pa | 151,832 | Chris Snelling (4) | Craig Anderson (1) | Lost in Semi-Finals |
| 3 | High Desert Mavericks | MIL | 71 | 69 | .507 | 20.0 | 837 | 844 | Frank Kremblas | Mavericks Stadium | 143,361 | Steve Scarborough (6) | Matt Parker (6) | Lost in Semi-Finals |
| 4 | Rancho Cucamonga Quakes | ANA | 63 | 77 | .450 | 28.0 | 629 | 742 | Tim Wallach | Rancho Cucamonga Epicente | 292,107 | Mike O'Keefe (15) | Phil Wilson (13) | |
| 5 | Lancaster JetHawks | ARI | 61 | 79 | .436 | 30.0 | 801 | 837 | Scott Coolbaugh | Lancaster Municipal Stadi | 173,621 | Billy Martin (2) | Brandon Webb (7) | |