| Round | Overall | Player |
|---|---|---|
| 1 | 11th | 3B Evan Longoria TB |
| 2 | 14th | SS Troy Tulowitzki Col |
| 3 | 35th | SP Felix Hernandez Sea |
| 4 | 38th | 1B Adam Dunn ChA |
| 5 | 59th | 2B Robinson Cano NYA |
| 6 | 62nd | SP Cliff Lee Phi |
| 7 | 83rd | 1B Derrek Lee Bal |
| 8 | 86th | SP Scott Baker Min |
| 9 | 107th | OF Bobby Abreu LAA |
| 10 | 110th | RP Joakim Soria KC |
| 11 | 131st | OF Ichiro Suzuki Sea |
| 12 | 134th | SP Max Scherzer Det |
| 13 | 155th | DH David Ortiz Bos |
| 14 | 158th | OF Chris Young Ari |
| 15 | 179th | SP Ted Lilly LAD |
| 16 | 182nd | RP Brad Lidge Phi |
| 17 | 203rd | OF Magglio Ordonez Det |
| 18 | 206th | 3B Jorge Cantu Tex |
| 19 | 227th | C Chris Iannetta Col |
| 20 | 230th | SP Aroldis Chapman Cin |
| 21 | 251st | OF Jermaine Dye ChA |
| 22 | 254th | SP Madison Bumgarner SF |
| 23 | 275th | SS Ian Desmond Was |
| 24 | 278th | SP Philip Hughes NYA |
| 25 | 299th | C Rod Barajas NYN |
| 26 | 302nd | RP Matt Lindstrom Col |
| 27 | 323rd | 3B Mark Teahen ChA |
| 28 | 326th | 2B Kazuo Matsui Hou |
| 29 | 347th | SP Trevor Cahill Oak |