| Round | Overall | Player |
|---|---|---|
| 1 | 3rd | 1B Prince Fielder Mil |
| 2 | 22nd | SS Troy Tulowitzki Col |
| 3 | 27th | SP Justin Verlander Det |
| 4 | 46th | RP Francisco Rodriguez LAA |
| 5 | 51st | SP C.C. Sabathia Mil |
| 6 | 70th | 3B Ryan Zimmerman Was |
| 7 | 75th | C Jorge Posada NYA |
| 8 | 94th | OF Corey Hart Mil |
| 9 | 99th | OF Andruw Jones LAD |
| 10 | 118th | SP Jeremy Bonderman Det |
| 11 | 123rd | SP Pedro Martinez NYN |
| 12 | 142nd | 2B Howie Kendrick LAA |
| 13 | 147th | SP Javier Vazquez ChA |
| 14 | 166th | 1B Carlos Delgado NYN |
| 15 | 171st | RP Todd Jones Det |
| 16 | 190th | 1B Joey Votto Cin |
| 17 | 195th | SP Matt Capps Pit |
| 18 | 214th | 3B Josh Fields ChA |
| 19 | 219th | OF J.D. Drew Bos |
| 20 | 238th | OF Chase Headley SD |
| 21 | 243rd | OF Colby Rasmus StL |
| 22 | 262nd | OF Elijah Dukes Was |
| 23 | 267th | SP Carlos Silva Sea |
| 24 | 286th | 2B Tadahito Iguchi SD |
| 25 | 291st | SS Alex Gonzalez Cin |
| 26 | 310th | SP Jeremy Guthrie Bal |
| 27 | 315th | SP Paul Byrd Bos |
| 28 | 334th | SP Livan Hernandez Col |
| 29 | 339th | OF Mike Cameron Mil |