Seeding for the 2003 ACC Baseball Tournament is as follows.
| 1. | Florida State | (19-5, .792) |
| 2. | Georgia Tech | (17-7, .708) |
| 3. | NC State | (15-9, .625) |
| 4. | Clemson | (15-9, .625) |
| 5. | North Carolina | (13-11, .542) |
| 6. | Virginia | (11-12, .478) |
| 7. | Wake Forest | (8-15, .348) |
| 8. | Maryland | (6-17, .261) |
| 9. | Duke | (2-21, .087) |