| Round | Overall | Player |
|---|---|---|
| 1 | 3rd | 1B Prince Fielder Mil |
| 2 | 22nd | 3B Ryan Zimmerman Was |
| 3 | 27th | SS Jimmy Rollins Phi |
| 4 | 46th | OF Jayson Werth Was |
| 5 | 51st | RP Jon Papelbon Bos |
| 6 | 70th | SP Clayton Kershaw LAD |
| 7 | 75th | 1B Carlos Pena ChN |
| 8 | 94th | SP Jake Peavy ChA |
| 9 | 99th | OF Torii Hunter LAA |
| 10 | 118th | OF Jay Bruce Cin |
| 11 | 123rd | SP James Shields TB |
| 12 | 142nd | C Mike Napoli LAA |
| 13 | 147th | 1B Chris Davis Tex |
| 14 | 166th | SP Mark Buehrle ChA |
| 15 | 171st | 2B Jose Lopez Col |
| 16 | 190th | OF Nolan Reimold Bal |
| 17 | 195th | C Ryan Doumit Pit |
| 18 | 214th | OF J.D. Drew Bos |
| 19 | 219th | SS Erick Aybar LAA |
| 20 | 238th | SP Joe Blanton Phi |
| 21 | 243rd | SP Hiroki Kuroda LAD |
| 22 | 262nd | 3B Martin Prado Atl |
| 23 | 267th | OF Alex Gordon KC |
| 24 | 286th | SP Brandon Morrow Tor |
| 25 | 291st | OF Corey Hart Mil |
| 26 | 310th | RP Matt Capps Min |
| 27 | 315th | RP Neftali Feliz Tex |
| 28 | 334th | SP Ryan Rowland-Smith Hou |
| 29 | 339th | RP Fernando Rodney LAA |