| Rk | Team | Nickname | W | L | Pct | Gbl | Overall | RF | RA | Manager | Stadium | Top Batter | Top Pitcher | Playoffs |
| 1 | Florida Atlantic | Owls | 25 | 8 | .758 | -- | 47-16 | 0 | 55 | Kevin Cooney | FAU Baseball Stadium | CWS Regionals, #23 in Nation | ||
| 2 | Stetson | Hatters | 21 | 12 | .636 | 4.0 | 41-24 | 0 | 0 | Peter Dunn | Melching Field | Conf. Finalists, CWS Regionals | ||
| 3 | Jacksonville State | Gamecocks | 19 | 14 | .576 | 6.0 | 32-26 | 270 | 0 | Jim Case | Rudy Abbott Field | Evan Conley (20) | - | |
| 4 | Belmont | Bruins | 19 | 14 | .576 | 6.0 | 29-23 | 562 | 0 | Jason Stein | Herschel Greer Stadium | Sam Bradford (10) | - | |
| 6 | Jacksonville ** | Dolphins | 17 | 16 | .515 | 8.0 | 32-30 | 271 | 165 | Terry Alexander | John Sessions Stadium | Chad Oliva (4) | Darren Truty (2) | Conf. Champs,CWS Regionals |
| 7 | Troy | Trojans | 16 | 17 | .485 | 9.0 | 27-27 | 337 | 266 | Bobby Pierce | Riddle-Pace Field | Wade Miller (1) | Justin Eason (3) | - |
| 9 | Central Florida | Golden Knights | 14 | 16 | .467 | 9.5 | 31-25 | 25 | 33 | Jay Bergman | Jay Bergman Field | - | ||
| 10 | Campbell | Camels | 14 | 19 | .424 | 11.0 | 22-28 | 243 | 256 | Chip Smith | Taylor Field | Sal Deanda (18) | Jeff Stovall (4) | - |
| 11 | Samford | Bulldogs | 7 | 23 | .233 | 16.5 | 17-34 | 335 | 199 | Tim Parenton | Joe Lee Griffin Stadium | Cory Sumner (7) | Ehren Wassermann (1) | - |
| 12 | Mercer | Bears | 6 | 21 | .222 | 16.0 | 11-34 | 302 | 0 | Barry Myers | Claude Smith Field | David Harwell (5) | - |