| Round | Overall | Player |
|---|---|---|
| 1 | 11th | 3B David Wright NYN |
| 2 | 14th | 1B Ryan Howard Phi |
| 3 | 35th | SP Cole Hamels Phi |
| 4 | 38th | 2B Rickie Weeks Mil |
| 5 | 59th | SS Jimmy Rollins Phi |
| 6 | 62nd | SP Dan Haren LAA |
| 7 | 83rd | OF Hunter Pence Phi |
| 8 | 86th | OF Jason Bay NYN |
| 9 | 107th | RP Carlos Marmol ChN |
| 10 | 110th | RP Huston Street SD |
| 11 | 131st | SP Ricky Romero Tor |
| 12 | 134th | SP Mark Buehrle Fla |
| 13 | 155th | OF Bobby Abreu LAA |
| 14 | 158th | 1B Derrek Lee Pit |
| 15 | 179th | SP Bronson Arroyo Cin |
| 16 | 182nd | OF Jason Kubel Ari |
| 17 | 203rd | SP Derek Lowe Atl |
| 18 | 206th | DH Jorge Posada NYA |
| 19 | 227th | OF Alfonso Soriano ChN |
| 20 | 230th | C A.J. Pierzynski ChA |
| 21 | 251st | SP Clayton Richard SD |
| 22 | 254th | SS Alex Gonzalez Mil |
| 23 | 275th | 1B Matt LaPorta Cle |
| 24 | 278th | 3B Brandon Inge Det |
| 25 | 299th | SP Bud Norris Hou |
| 26 | 302nd | SP Vince Mazzaro KC |
| 27 | 323rd | 2B Luis Castillo Phi |
| 28 | 326th | SP Randy Wolf Mil |
| 29 | 347th | SP Joe Blanton Phi |