| Round | Overall | Player |
|---|---|---|
| 1 | 7th | 2B Chase Utley Phi |
| 2 | 18th | 1B Derrek Lee ChN |
| 3 | 31st | OF Jason Bay Pit |
| 4 | 42nd | OF Adam Dunn Cin |
| 5 | 55th | RP Joe Nathan Min |
| 6 | 66th | SP Jake Peavy SD |
| 7 | 79th | 1B Carlos Guillen Det |
| 8 | 90th | SP Felix Hernandez Sea |
| 9 | 103rd | 3B Chipper Jones Atl |
| 10 | 114th | SP Scott Kazmir TB |
| 11 | 127th | RP Jason Isringhausen StL |
| 12 | 138th | C Ivan Rodriguez Det |
| 13 | 151st | SP Tim Hudson Atl |
| 14 | 162nd | 2B Jeff Kent LAD |
| 15 | 175th | OF Chris Duncan StL |
| 16 | 186th | 3B Alex Gordon KC |
| 17 | 199th | SP Chuck James Atl |
| 18 | 210th | OF Moises Alou NYN |
| 19 | 223rd | DH Mike Piazza Oak |
| 20 | 234th | SP John Maine NYN |
| 21 | 247th | RP Eric Gagne Hou |
| 22 | 258th | 1B Ryan Garko Cle |
| 23 | 271st | C Ronny Paulino Pit |
| 24 | 282nd | SP Oliver Perez NYN |
| 25 | 295th | SS J.J. Hardy Mil |
| 26 | 306th | OF Andre Ethier LAD |
| 27 | 319th | OF Garret Anderson LAA |
| 28 | 330th | 2B Akinori Iwamura TB |
| 29 | 343rd | SP Ricky Nolasco Fla |