| Round | Overall | Player |
|---|---|---|
| 1 | 4th | OF Alfonso Soriano ChN |
| 2 | 21st | 1B Justin Morneau Min |
| 3 | 28th | OF Carlos Lee Hou |
| 4 | 45th | SP Carlos Zambrano ChN |
| 5 | 52nd | 1B Carlos Guillen Det |
| 6 | 69th | SP Ben Sheets Mil |
| 7 | 76th | 3B Ryan Zimmerman Was |
| 8 | 93rd | OF Ichiro Suzuki Sea |
| 9 | 100th | 2B Ian Kinsler Tex |
| 10 | 117th | SP Ervin Santana LAA |
| 11 | 124th | C Kenji Johjima Sea |
| 12 | 141st | SP Cole Hamels Phi |
| 13 | 148th | 1B Adrian Gonzalez SD |
| 14 | 165th | 3B Alex Gordon KC |
| 15 | 172nd | RP Eric Gagne Hou |
| 16 | 189th | SP Freddy Garcia Phi |
| 17 | 196th | OF Chris Young Ari |
| 18 | 213th | SP Jeremy Sowers Cle |
| 19 | 220th | OF Luke Scott Bal |
| 20 | 237th | RP Octavio Dotel Atl |
| 21 | 244th | SP Matt Garza TB |
| 22 | 261st | SP Anthony Reyes StL |
| 23 | 268th | 2B Luis Castillo NYN |
| 24 | 285th | SP Carl Pavano NYA |
| 25 | 292nd | OF Brad Wilkerson Tex |
| 26 | 309th | C Mike Napoli LAA |
| 27 | 316th | 1B Ryan Garko Cle |
| 28 | 333rd | SP Daniel Wheeler TB |
| 29 | 340th | SS Jason Bartlett Min |