| Round | Overall | Player |
|---|---|---|
| 1 | 11th | OF Bobby Abreu NYA |
| 2 | 14th | 2B Chase Utley Phi |
| 3 | 35th | SP Chris Carpenter StL |
| 4 | 38th | 1B Richie Sexson Sea |
| 5 | 59th | RP Francisco Rodriguez LAA |
| 6 | 62nd | OF Ichiro Suzuki Sea |
| 7 | 83rd | RP Francisco Cordero Mil |
| 8 | 86th | SP Jason Schmidt SF |
| 9 | 107th | 2B Felipe Lopez Was |
| 10 | 110th | 3B Melvin Mora Bal |
| 11 | 131st | SP A.J. Burnett Tor |
| 12 | 134th | RP Derrick Turnbow Mil |
| 13 | 155th | OF Kevin Mench Mil |
| 14 | 158th | SP Joe Blanton Oak |
| 15 | 179th | DH Javy Lopez Bos |
| 16 | 182nd | SP Ervin Santana LAA |
| 17 | 203rd | OF Jay Gibbons Bal |
| 18 | 206th | SP Esteban Loaiza Oak |
| 19 | 227th | 3B Ryan Zimmerman Was |
| 20 | 230th | 1B Casey Kotchman LAA |
| 21 | 251st | SP Aaron Heilman NYN |
| 22 | 254th | C Jason LaRue KC |
| 23 | 275th | 2B Jose Castillo Pit |
| 24 | 278th | OF Juan Rivera LAA |
| 25 | 299th | OF Matt Murton ChN |
| 26 | 302nd | SS Russ Adams Tor |
| 27 | 323rd | SP Carl Pavano NYA |
| 28 | 326th | OF Emil Brown KC |
| 29 | 347th | C Javier Valentin Cin |