| Round | Overall | Player |
|---|---|---|
| 1 | 11th | 3B Evan Longoria TB |
| 2 | 14th | SS Troy Tulowitzki Col |
| 3 | 35th | OF Grady Sizemore Cle |
| 4 | 38th | 3B Kevin Youkilis Bos |
| 5 | 59th | 3B Pablo Sandoval SF |
| 6 | 62nd | OF Nelson Cruz Tex |
| 7 | 83rd | 2B Brian Roberts Bal |
| 8 | 86th | C Matt Wieters Bal |
| 9 | 107th | OF Melvin Upton TB |
| 10 | 110th | SP Chad Billingsley LAD |
| 11 | 131st | SP Roy Oswalt Phi |
| 12 | 134th | OF Carlos Gonzalez Col |
| 13 | 155th | SP Tim Hudson Atl |
| 14 | 158th | SP David Price TB |
| 15 | 179th | SP Rich Harden Oak |
| 16 | 182nd | SP Ervin Santana LAA |
| 17 | 203rd | SP Stephen Strasburg Was |
| 18 | 206th | SP Ben Sheets Oak |
| 19 | 227th | SS Elvis Andrus Tex |
| 20 | 230th | OF Colby Rasmus StL |
| 21 | 251st | SP Ted Lilly LAD |
| 22 | 254th | SP Mat Latos SD |
| 23 | 275th | SP Luke Hochevar KC |
| 24 | 278th | SP Aaron Cook Col |
| 25 | 299th | 1B Russ Branyan Sea |
| 26 | 302nd | SP Paul Maholm Pit |
| 27 | 323rd | 2B Scott Sizemore Det |
| 28 | 326th | C Nick Hundley SD |
| 29 | 347th | 1B Ty Wigginton Col |