| Round | Overall | Player |
|---|---|---|
| 1 | 7th | OF Ryan Braun Mil |
| 2 | 18th | OF Carl Crawford Bos |
| 3 | 31st | SS Jose Reyes Fla |
| 4 | 42nd | SP Ubaldo Jimenez Cle |
| 5 | 55th | C Brian McCann Atl |
| 6 | 66th | 3B Mark Reynolds Bal |
| 7 | 79th | SP Francisco Liriano Min |
| 8 | 90th | 2B Aaron Hill Ari |
| 9 | 103rd | RP Carlos Marmol ChN |
| 10 | 114th | OF Curtis Granderson NYA |
| 11 | 127th | SP Josh Beckett Bos |
| 12 | 138th | 1B Aubrey Huff SF |
| 13 | 151st | DH Vladimir Guerrero Bal |
| 14 | 162nd | SP Wandy Rodriguez Hou |
| 15 | 175th | RP Brad Lidge Phi |
| 16 | 186th | SP Hiroki Kuroda NYA |
| 17 | 199th | 1B Kila Ka'Aihue Oak |
| 18 | 210th | OF Angel Pagan SF |
| 19 | 223rd | SP Carlos Zambrano Fla |
| 20 | 234th | 2B Tsuyoshi Nishioka Min |
| 21 | 247th | RP Ryan Franklin StL |
| 22 | 258th | SS Miguel Tejada SF |
| 23 | 271st | 1B Matt LaPorta Cle |
| 24 | 282nd | SP Mike Minor Atl |
| 25 | 295th | 3B Danny Valencia Min |
| 26 | 306th | SP Anibal Sanchez Fla |
| 27 | 319th | OF David DeJesus Oak |
| 28 | 330th | SP Daisuke Matsuzaka Bos |
| 29 | 343rd | C A.J. Pierzynski ChA |