| Round | Overall | Player |
|---|---|---|
| 1 | 11th | SP Johan Santana Min |
| 2 | 14th | 1B Lance Berkman Hou |
| 3 | 35th | OF Carl Crawford TB |
| 4 | 38th | SP Jon Papelbon Bos |
| 5 | 59th | DH Gary Sheffield Det |
| 6 | 62nd | SP Daisuke Matsuzaka Bos |
| 7 | 83rd | SP John Lackey LAA |
| 8 | 86th | SS Rafael Furcal LAD |
| 9 | 107th | 3B Chone Figgins LAA |
| 10 | 110th | RP Chris Ray Bal |
| 11 | 131st | 2B Brandon Phillips Cin |
| 12 | 134th | SP Cole Hamels Phi |
| 13 | 155th | OF Ken Griffey Jr Cin |
| 14 | 158th | RP Brian Fuentes Col |
| 15 | 179th | OF Juan Pierre LAD |
| 16 | 182nd | OF Rocco Baldelli TB |
| 17 | 203rd | 1B Nick Johnson Was |
| 18 | 206th | 2B Freddy Sanchez Pit |
| 19 | 227th | 2B Howie Kendrick LAA |
| 20 | 230th | OF Ryan Freel Cin |
| 21 | 251st | OF Sammy Sosa Tex |
| 22 | 254th | SP Joel Zumaya Det |
| 23 | 275th | RP Octavio Dotel Atl |
| 24 | 278th | OF Corey Patterson Bal |
| 25 | 299th | SP Matt Garza TB |
| 26 | 302nd | C Gregg Zaun Tor |
| 27 | 323rd | SP Kip Wells StL |
| 28 | 326th | OF Ryan Braun Mil |
| 29 | 347th | SP Tomo Ohka Tor |