| Northern | ||||||||||||||
| Rk | Team | Affiliate | W | L | Pct | Gbl | RF | RA | Manager | Stadium | Attendance | Top Batter | Top Pitcher | Playoffs |
| 1 | Wilmington Blue Rocks ** | KC | 94 | 44 | .681 | -- | 735 | 491 | Mike Jirschele | Daniel S. Frawley Stadium | 335,024 | Larry Sutton (1) | Mike Bovee (2) | League Champions |
| 2 | Frederick Keys | BAL | 76 | 61 | .555 | 17.5 | 758 | 676 | Mike O'Berry | Harry Grove Stadium | 344,563 | Kimera Bartee (6) | Calvin Maduro (13) | |
| 3 | Prince William Cannons | CHW | 71 | 65 | .522 | 22.0 | 723 | 640 | Dave Huppert | G. Richard Pfitzner Stadi | 210,401 | Jimmy Hurst (4) | Jason Pierson (1) | |
| 4 | Lynchburg Red Sox | BOS | 52 | 87 | .374 | 42.5 | 600 | 768 | Mark Meleski | Lynchburg City Stadium | 100,724 | Ryan McGuire (11) | Wes Brooks (4) | |
| Southern | ||||||||||||||
| Rk | Team | Affiliate | W | L | Pct | Gbl | RF | RA | Manager | Stadium | Attendance | Top Batter | Top Pitcher | Playoffs |
| 1 | Winston-Salem Spirits | CIN | 67 | 70 | .489 | -- | 726 | 743 | Mark Berry | Ernie Shore Field | 160,994 | Pat Watkins (2) | Will Brunson (7) | Lost in Finals |
| 2 | Durham Bulls | ATL | 66 | 70 | .485 | -- | 676 | 688 | Matt West | Durham Athletic Park | 259,758 | Damon Hollins (12) | Mike D'Andrea (12) | Lost in Semi-Finals |
| 3 | Salem Buccaneers | PIT | 64 | 75 | .460 | 4.0 | 742 | 727 | Trent Jewett | Salem Municipal Stadium | 153,575 | Chance Sanford (8) | Marc Wilkins (14) | |
| 4 | Kinston Indians | CLE | 60 | 78 | .435 | 7.5 | 584 | 716 | Dave Keller | Grainger Stadium | 122,557 | Jon Nunnally (7) | Casey Whitten (8) | |