| Northern | ||||||||||||||
| Rk | Team | Affiliate | W | L | Pct | Gbl | RF | RA | Manager | Stadium | Attendance | Top Batter | Top Pitcher | Playoffs |
| 1 | Wilmington Blue Rocks | KC | 78 | 62 | .557 | -- | 610 | 537 | Jeff Garber | Daniel S. Frawley Stadium | 336,074 | Marco Cunningham (2) | Jimmy Gobble (3) | Lost in Finals (Salem) |
| 2 | Frederick Keys | BAL | 70 | 69 | .504 | 7.5 | 538 | 526 | Dave Cash | Harry Grove Stadium | 320,262 | Doug Gredvig (5) | Sonny Garcia (8) | Lost in Semi-Finals (Wilmington) |
| 3 | Potomac Cannons | STL | 66 | 74 | .471 | 12.0 | 532 | 581 | Joseph Cunningham | G. Richard Pfitzner Stadi | 181,758 | Coco Crisp (3) | Jimmy Journell (5) | |
| 4 | Lynchburg Hillcats | PIT | 58 | 79 | .423 | 18.5 | 538 | 631 | Curtis Wilkerson | Lynchburg City Stadium | 112,310 | Chris Combs (11) | Jeff Bennett (6) | |
| Southern | ||||||||||||||
| Rk | Team | Affiliate | W | L | Pct | Gbl | RF | RA | Manager | Stadium | Attendance | Top Batter | Top Pitcher | Playoffs |
| 1 | Kinston Indians | CLE | 89 | 51 | .636 | -- | 629 | 461 | Brad Komminsk | Grainger Stadium | 133,169 | Victor Martinez (9) | Brian Tallet (2) | Lost in Semi-Finals (Salem) |
| 2 | Myrtle Beach Pelicans | ATL | 71 | 67 | .514 | 17.0 | 553 | 526 | Brian Snitker | BB&T Coastal Field | 214,160 | Ryan Langerhans (6) | Trey Hodges (1) | |
| 3 | Salem Avalanche ** | COL | 70 | 68 | .507 | 18.0 | 558 | 607 | Dave Collins | Salem Municipal Stadium | 203,375 | Garrett Atkins (1) | Aaron Cook (9) | League Champions (Wilmington) |
| 4 | Winston-Salem Warthogs | CHW | 54 | 86 | .386 | 35.0 | 507 | 611 | Wally Backman | Ernie Shore Field | 141,164 | Ryan Hankins (8) | Brian West (7) | |