| Round | Overall | Player |
|---|---|---|
| 1 | 8th | OF Ryan Braun Mil |
| 2 | 17th | 3B Alex Rodriguez NYA |
| 3 | 32nd | SP C.C. Sabathia NYA |
| 4 | 41st | SS Alexei Ramirez ChA |
| 5 | 56th | C Brian McCann Atl |
| 6 | 65th | SP Roy Oswalt Hou |
| 7 | 80th | OF Magglio Ordonez Det |
| 8 | 89th | SP Yovani Gallardo Mil |
| 9 | 104th | 1B Carlos Delgado NYN |
| 10 | 113th | 3B Adrian Beltre Bos |
| 11 | 128th | OF Andre Ethier LAD |
| 12 | 137th | RP B.J. Ryan Tor |
| 13 | 152nd | SP Erik Bedard Sea |
| 14 | 161st | SP Ted Lilly ChN |
| 15 | 176th | OF Johnny Damon NYA |
| 16 | 185th | SP Clayton Kershaw LAD |
| 17 | 200th | 1B Adam LaRoche Ari |
| 18 | 209th | RP Joey Devine Oak |
| 19 | 224th | 2B Howie Kendrick LAA |
| 20 | 233rd | SP Randy Johnson Ret |
| 21 | 248th | SP Andy Sonnanstine TB |
| 22 | 257th | OF Mike Cameron Bos |
| 23 | 272nd | 2B Mark Ellis Oak |
| 24 | 281st | DH Jack Cust Oak |
| 25 | 296th | RP Joel Hanrahan Was |
| 26 | 305th | SS Jason Bartlett TB |
| 27 | 320th | C Yadier Molina StL |
| 28 | 329th | RP J.J. Putz ChA |
| 29 | 344th | 3B Scott Rolen Cin |