| Round | Overall | Player |
|---|---|---|
| 1 | 8th | 2B Chase Utley Phi |
| 2 | 17th | DH Victor Martinez Det |
| 3 | 32nd | SP C.C. Sabathia NYA |
| 4 | 41st | SP Justin Verlander Det |
| 5 | 56th | SS Derek Jeter NYA |
| 6 | 65th | OF Carlos Quentin ChA |
| 7 | 80th | SP Matt Cain SF |
| 8 | 89th | SP Jake Peavy ChA |
| 9 | 104th | OF Hunter Pence Hou |
| 10 | 113th | 3B Chipper Jones Atl |
| 11 | 128th | 3B Adrian Beltre Tex |
| 12 | 137th | OF Carlos Beltran NYN |
| 13 | 152nd | 1B James Loney LAD |
| 14 | 161st | DH Vladimir Guerrero Tex |
| 15 | 176th | OF Johnny Damon Det |
| 16 | 185th | SP Ervin Santana LAA |
| 17 | 200th | SP Francisco Liriano Min |
| 18 | 209th | SP Joe Saunders Ari |
| 19 | 224th | OF Conor Jackson Oak |
| 20 | 233rd | OF Chris Coghlan Fla |
| 21 | 248th | DH Nick Johnson NYA |
| 22 | 257th | SP Brandon Morrow Tor |
| 23 | 272nd | SP Barry Zito SF |
| 24 | 281st | C Ben Molina Tex |
| 25 | 296th | OF Delmon Young Min |
| 26 | 305th | 2B Felipe Lopez STL |
| 27 | 320th | SS Maicer Izturis LAA |
| 28 | 329th | SP Brett Myers Hou |
| 29 | 344th | SP Chris Tillman Bal |