| Round | Overall | Player |
|---|---|---|
| 1 | 10th | 1B Miguel Cabrera Det |
| 2 | 15th | 3B David Wright NYN |
| 3 | 34th | OF Curtis Granderson NYA |
| 4 | 39th | 2B Brandon Phillips Cin |
| 5 | 58th | SP Johan Santana NYN |
| 6 | 63rd | SP Jon Lester Bos |
| 7 | 82nd | OF Carl Crawford Bos |
| 8 | 87th | OF Josh Hamilton Tex |
| 9 | 106th | C Matt Wieters Bal |
| 10 | 111th | OF Jay Bruce Cin |
| 11 | 130th | SP Matt Garza ChN |
| 12 | 135th | RP Huston Street Col |
| 13 | 154th | SP Kevin Slowey Min |
| 14 | 159th | SS Asdrubal Cabrera Cle |
| 15 | 178th | SP Clay Buchholz Bos |
| 16 | 183rd | RP Leo Nunez Fla |
| 17 | 202nd | C Ryan Doumit Pit |
| 18 | 207th | SP Johnny Cueto Cin |
| 19 | 226th | 3B Chase Headley SD |
| 20 | 231st | SS J.J. Hardy Bal |
| 21 | 250th | SP Jason Frasor Tor |
| 22 | 255th | SP Brad Penny Det |
| 23 | 274th | SP Colby Lewis Tex |
| 24 | 279th | 2B Sean Rodriguez TB |
| 25 | 298th | 1B Jeff Clement Pit |
| 26 | 303rd | OF Travis Snider Tor |
| 27 | 322nd | RP Matt Capps Min |
| 28 | 327th | 1B Carlos Guillen Det |
| 29 | 346th | 3B Placido Polanco Phi |