| Round | Overall | Player |
|---|---|---|
| 1 | 9th | 1B Miguel Cabrera Det |
| 2 | 16th | OF Josh Hamilton Tex |
| 3 | 33rd | OF Matt Kemp LAD |
| 4 | 40th | SS Jose Reyes Fla |
| 5 | 57th | 3B Aramis Ramirez Mil |
| 6 | 64th | SP Clay Buchholz Bos |
| 7 | 81st | SP Francisco Liriano Min |
| 8 | 88th | C Mike Napoli Tex |
| 9 | 105th | SP Tim Hudson Atl |
| 10 | 112th | DH Mike Young Tex |
| 11 | 129th | 2B Ben Zobrist TB |
| 12 | 136th | OF Magglio Ordonez Det |
| 13 | 153rd | RP Brad Lidge Phi |
| 14 | 160th | SP Edison Volquez SD |
| 15 | 177th | SP Brett Myers Hou |
| 16 | 184th | RP Joe Nathan Tex |
| 17 | 201st | SS Jhonny Peralta Det |
| 18 | 208th | SP Anibal Sanchez Fla |
| 19 | 225th | 1B Adam LaRoche Was |
| 20 | 232nd | SP Carlos Zambrano Fla |
| 21 | 249th | OF Nate McLouth Atl |
| 22 | 256th | SP Jake Peavy ChA |
| 23 | 273rd | C Ryan Doumit Pit |
| 24 | 280th | SP Johan Santana NYN |
| 25 | 297th | SP Javier Vazquez Fla |
| 26 | 304th | 2B Carlos Guillen Det |
| 27 | 321st | OF J.D. Drew Bos |
| 28 | 328th | 1B Brett Wallace Hou |
| 29 | 345th | RP Daniel Bard Bos |