| Round | Overall | Player |
|---|---|---|
| 1 | 1st | SS Alex Rodriguez Tex |
| 2 | 24th | 3B Scott Rolen StL |
| 3 | 25th | SP Barry Zito Oak |
| 4 | 48th | SP Bartolo Colon ChA |
| 5 | 49th | OF Adam Dunn Cin |
| 6 | 72nd | SP Mark Buehrle ChA |
| 7 | 73rd | 2B Aaron Boone NYA |
| 8 | 96th | DH Erubiel Durazo Oak |
| 9 | 97th | OF Johnny Damon Bos |
| 10 | 120th | SP Joel Pineiro Sea |
| 11 | 121st | SP Andy Pettitte NYA |
| 12 | 144th | OF Carlos Lee ChA |
| 13 | 145th | C Charles Johnson Col |
| 14 | 168th | SP Brad Radke Min |
| 15 | 169th | SP Tomo Ohka Mon |
| 16 | 192nd | 1B Travis Hafner Cle |
| 17 | 193rd | RP Matt Anderson Det |
| 18 | 216th | OF Trot Nixon Bos |
| 19 | 217th | 3B Hank Blalock Tex |
| 20 | 240th | 1B Robert Fick Atl |
| 21 | 241st | SS Chris Woodward Tor |
| 22 | 264th | SP Adam Eaton SD |
| 23 | 265th | C Javy Lopez Atl |
| 24 | 288th | OF Matt Lawton Cle |
| 25 | 289th | SP John Patterson Ari |
| 26 | 312th | 2B Ron Belliard Col |
| 27 | 313th | DH Nick Johnson NYA |
| 28 | 336th | SP Dennis Stark Col |
| 29 | 337th | RP Steve Kline StL |