| Round | Overall | Player |
|---|---|---|
| 1 | 7th | SS Jose Reyes NYN |
| 2 | 18th | SP Brandon Webb Ari |
| 3 | 31st | 2B Brandon Phillips Cin |
| 4 | 42nd | SP Justin Verlander Det |
| 5 | 55th | DH Travis Hafner Cle |
| 6 | 66th | OF Hideki Matsui NYA |
| 7 | 79th | SP Brad Penny LAD |
| 8 | 90th | OF Andruw Jones LAD |
| 9 | 103rd | SP Dustin McGowan Tor |
| 10 | 114th | 1B Carlos Delgado NYN |
| 11 | 127th | 1B James Loney LAD |
| 12 | 138th | OF Ken Griffey Jr ChA |
| 13 | 151st | RP Brandon Lyon Det |
| 14 | 162nd | RP B.J. Ryan Tor |
| 15 | 175th | OF Chris Duncan StL |
| 16 | 186th | SP Tom Gorzelanny Pit |
| 17 | 199th | 3B Edwin Encarnacion Cin |
| 18 | 210th | SP Randy Johnson Ari |
| 19 | 223rd | C Ben Molina SF |
| 20 | 234th | 3B Mark Reynolds Ari |
| 21 | 247th | SP Shaun Marcum Tor |
| 22 | 258th | 1B Lyle Overbay Tor |
| 23 | 271st | SP C.J. Wilson Tex |
| 24 | 282nd | C Josh Bard Bos |
| 25 | 295th | OF Willy Taveras Cin |
| 26 | 306th | RP Jeremiah Accardo Tor |
| 27 | 319th | SP Scott Baker Min |
| 28 | 330th | SS David Eckstein SD |
| 29 | 343rd | 2B Mark DeRosa Cle |