| Round | Overall | Player |
|---|---|---|
| 1 | 7th | 1B Prince Fielder Mil |
| 2 | 18th | SS Derek Jeter NYA |
| 3 | 31st | 2B Ian Kinsler Tex |
| 4 | 42nd | OF Grady Sizemore Cle |
| 5 | 55th | 3B Aramis Ramirez ChN |
| 6 | 66th | SP Cliff Lee Phi |
| 7 | 79th | DH Vladimir Guerrero Tex |
| 8 | 90th | RP Francisco Rodriguez NYN |
| 9 | 103rd | OF Shane Victorino Phi |
| 10 | 114th | OF Torii Hunter LAA |
| 11 | 127th | SP Clayton Kershaw LAD |
| 12 | 138th | SP A.J. Burnett NYA |
| 13 | 151st | C Mike Napoli LAA |
| 14 | 162nd | SP Brandon Webb Tex |
| 15 | 175th | OF Nick Swisher NYA |
| 16 | 186th | RP Ryan Franklin StL |
| 17 | 199th | OF Alex Gordon KC |
| 18 | 210th | 1B Paul Konerko ChA |
| 19 | 223rd | SS Everth Cabrera SD |
| 20 | 234th | 2B Skip Schumaker StL |
| 21 | 247th | SP Joe Blanton Phi |
| 22 | 258th | SP Barry Zito SF |
| 23 | 271st | C Ivan Rodriguez Was |
| 24 | 282nd | OF Coco Crisp Oak |
| 25 | 295th | SP Tim Wakefield Bos |
| 26 | 306th | OF Rick Ankiel Atl |
| 27 | 319th | SP Ryan Madson Phi |
| 28 | 330th | OF Carlos Beltran NYN |
| 29 | 343rd | SP Jamie Moyer Phi |