| Round | Overall | Player |
|---|---|---|
| 1 | 6th | 1B Joey Votto Cin |
| 2 | 19th | OF Josh Hamilton LAA |
| 3 | 30th | SS Jose Reyes Tor |
| 4 | 43rd | 3B Chase Headley SD |
| 5 | 54th | SP Gio Gonzalez Was |
| 6 | 67th | 1B Freddie Freeman Atl |
| 7 | 78th | C Wilin Rosario Col |
| 8 | 91st | OF Shin-Soo Choo Tex |
| 9 | 102nd | DH David Ortiz Bos |
| 10 | 115th | OF Nelson Cruz Tex |
| 11 | 126th | SP Brett Anderson Oak |
| 12 | 139th | 3B Pedro Alvarez Pit |
| 13 | 150th | 2B Neil Walker Pit |
| 14 | 163rd | RP Joel Hanrahan Bos |
| 15 | 174th | RP Sergio Romo SF |
| 16 | 187th | SP Lance Lynn StL |
| 17 | 198th | OF Michael Cuddyer Col |
| 18 | 211th | 3B Kevin Youkilis NYA |
| 19 | 222nd | OF Jason Kubel Ari |
| 20 | 235th | SP Chris Tillman Bal |
| 21 | 246th | OF Dayan Viciedo ChA |
| 22 | 259th | C Alex Avila Det |
| 23 | 270th | SP Ross Detwiler Was |
| 24 | 283rd | SP Andrew Cashner SD |
| 25 | 294th | RP Jason Grilli Pit |
| 26 | 307th | SP John Lannan Phi |
| 27 | 318th | SP Daniel Straily Oak |
| 28 | 331st | SS Adeiny Hechavarria Mia |
| 29 | 342nd | RP Jonathan Broxton Cin |