| Round | Overall | Player |
|---|---|---|
| 1 | 10th | SS Jose Reyes NYN |
| 2 | 15th | C Victor Martinez Cle |
| 3 | 34th | 2B Brian Roberts Bal |
| 4 | 39th | SP C.C. Sabathia Mil |
| 5 | 58th | OF Melvin Upton TB |
| 6 | 63rd | 1B Carlos Guillen Det |
| 7 | 82nd | OF Corey Hart Mil |
| 8 | 87th | SP Chris Young SD |
| 9 | 106th | DH Gary Sheffield Det |
| 10 | 111th | SP Brad Penny LAD |
| 11 | 130th | SP Jeremy Bonderman Det |
| 12 | 135th | SP Ben Sheets Mil |
| 13 | 154th | OF Delmon Young Min |
| 14 | 159th | DH Hank Blalock Tex |
| 15 | 178th | 1B Nick Johnson Was |
| 16 | 183rd | SP Barry Zito SF |
| 17 | 202nd | C Chris Snyder Ari |
| 18 | 207th | SP Cliff Lee Cle |
| 19 | 226th | 3B Bill Hall Mil |
| 20 | 231st | SP Ervin Santana LAA |
| 21 | 250th | OF Jose Guillen KC |
| 22 | 255th | SS Julio Lugo Bos |
| 23 | 274th | 2B Asdrubal Cabrera Cle |
| 24 | 279th | OF Milton Bradley ChN |
| 25 | 298th | SP Zack Greinke KC |
| 26 | 303rd | 3B Andy LaRoche Pit |
| 27 | 322nd | SP Justin Duchscherer Oak |
| 28 | 327th | OF Juan Rivera LAA |
| 29 | 346th | SP Paul Maholm Pit |