| Round | Overall | Player |
|---|---|---|
| 1 | 12th | SS Troy Tulowitzki Col |
| 2 | 13th | 3B David Wright NYN |
| 3 | 36th | OF Shin-Soo Choo Tex |
| 4 | 37th | SP Felix Hernandez Sea |
| 5 | 60th | 1B Anthony Rizzo ChN |
| 6 | 61st | OF Austin Jackson Sea |
| 7 | 84th | OF Jason Heyward Atl |
| 8 | 85th | 2B Ben Zobrist TB |
| 9 | 108th | OF Nelson Cruz Bal |
| 10 | 109th | SP Matthew Moore TB |
| 11 | 132nd | SP Alexander Cobb TB |
| 12 | 133rd | OF Coco Crisp Oak |
| 13 | 156th | RP Rafael Soriano Was |
| 14 | 157th | RP Casey Janssen Tor |
| 15 | 180th | SP Ivan Nova NYA |
| 16 | 181st | 1B Ryan Howard Phi |
| 17 | 204th | SP Yovani Gallardo Mil |
| 18 | 205th | C Yan Gomes Cle |
| 19 | 228th | SS Derek Jeter NYA |
| 20 | 229th | SP Matt Garza Mil |
| 21 | 252nd | 3B Cody Asche Phi |
| 22 | 253rd | 2B Dan Uggla SF |
| 23 | 276th | SP Corey Kluber Cle |
| 24 | 277th | SP Garrett Richards LAA |
| 25 | 300th | C Mike Zunino Sea |
| 26 | 301st | SP Jarred Cosart Hou |
| 27 | 324th | OF Alejandro De Aza ChA |
| 28 | 325th | SP Tyler Skaggs LAA |
| 29 | 348th | 3B David Freese LAA |