| Round | Overall | Player |
|---|---|---|
| 1 | 4th | SS Jose Reyes NYN |
| 2 | 21st | 3B Alex Rodriguez NYA |
| 3 | 28th | 1B Justin Morneau Min |
| 4 | 45th | OF Carlos Lee Hou |
| 5 | 52nd | OF Curtis Granderson NYA |
| 6 | 69th | SP Chad Billingsley LAD |
| 7 | 76th | OF Bobby Abreu LAA |
| 8 | 93rd | SP Carlos Zambrano ChN |
| 9 | 100th | OF Matt Kemp LAD |
| 10 | 117th | 3B Garrett Atkins Bal |
| 11 | 124th | SP Justin Verlander Det |
| 12 | 141st | RP Kerry Wood Cle |
| 13 | 148th | 2B Jose Lopez Sea |
| 14 | 165th | SP Aaron Harang Cin |
| 15 | 172nd | C Mike Napoli LAA |
| 16 | 189th | 1B Paul Konerko ChA |
| 17 | 196th | 2B Kelly Johnson Ari |
| 18 | 213th | C Ben Molina SF |
| 19 | 220th | SP Gil Meche KC |
| 20 | 237th | SP Jon Garland SD |
| 21 | 244th | 3B Ian Stewart Col |
| 22 | 261st | SS Yunel Escobar Atl |
| 23 | 268th | SP Joe Blanton Phi |
| 24 | 285th | OF Jose Guillen KC |
| 25 | 292nd | OF David Murphy Tex |
| 26 | 309th | SP Ian Snell Pit |
| 27 | 316th | OF Chris Dickerson Cin |
| 28 | 333rd | SP Jamie Moyer Phi |
| 29 | 340th | SP Philip Hughes NYA |