| Round | Overall | Player |
|---|---|---|
| 1 | 5th | 1B David Ortiz Bos |
| 2 | 20th | SS Jimmy Rollins Phi |
| 3 | 29th | OF Carlos Beltran NYN |
| 4 | 44th | SP John Smoltz Atl |
| 5 | 53rd | SP Dontrelle Willis Fla |
| 6 | 68th | 3B Troy Glaus Tor |
| 7 | 77th | OF Ken Griffey Jr Cin |
| 8 | 92nd | OF Torii Hunter Min |
| 9 | 101st | 2B Ron Belliard StL |
| 10 | 116th | C Ben Molina SF |
| 11 | 125th | RP Bob Wickman Atl |
| 12 | 140th | SP Matt Morris SF |
| 13 | 149th | DH Mike Sweeney KC |
| 14 | 164th | C Michael Barrett ChN |
| 15 | 173rd | RP Mike Timlin Bos |
| 16 | 188th | RP Danys Baez Bal |
| 17 | 197th | SP Jorge Sosa StL |
| 18 | 212th | OF Ryan Church Was |
| 19 | 221st | 2B Todd Walker SD |
| 20 | 236th | SP Kris Benson Bal |
| 21 | 245th | OF Juan Encarnacion StL |
| 22 | 260th | OF Ryan Langerhans Atl |
| 23 | 269th | 3B Aaron Boone Cle |
| 24 | 284th | SS Juan Uribe ChA |
| 25 | 293rd | RP Chris Reitsma Atl |
| 26 | 308th | SP Daniel Wheeler Hou |
| 27 | 317th | 1B Shea Hillenbrand LAA |
| 28 | 332nd | 2B Ray Durham SF |
| 29 | 341st | RP Kyle Farnsworth NYA |