| Round | Overall | Player |
|---|---|---|
| 1 | 4th | OF Carlos Beltran NYN |
| 2 | 21st | 3B Hank Blalock Tex |
| 3 | 28th | SP Mark Prior ChN |
| 4 | 45th | OF Sammy Sosa Bal |
| 5 | 52nd | OF Magglio Ordonez Det |
| 6 | 69th | SP John Smoltz Atl |
| 7 | 76th | SP Mike Mussina NYA |
| 8 | 93rd | C Jorge Posada NYA |
| 9 | 100th | SP Barry Zito Oak |
| 10 | 117th | 2B Brian Roberts Bal |
| 11 | 124th | 1B Jason Giambi NYA |
| 12 | 141st | DH Mike Sweeney KC |
| 13 | 148th | OF Austin Kearns Cin |
| 14 | 165th | SP Zack Greinke KC |
| 15 | 172nd | SP Jon Lieber Phi |
| 16 | 189th | SS Khalil Greene SD |
| 17 | 196th | SP Scott Kazmir TB |
| 18 | 213th | 3B Vinny Castilla Was |
| 19 | 220th | C Rod Barajas Tex |
| 20 | 237th | SP Dave Bush Tor |
| 21 | 244th | OF Larry Bigbie Col |
| 22 | 261st | SP Vicente Padilla Phi |
| 23 | 268th | SP Eric Milton Cin |
| 24 | 285th | SS Clint Barmes Col |
| 25 | 292nd | SP Tomo Ohka Mil |
| 26 | 309th | SP Tim Redding NYA |
| 27 | 316th | OF Luis Matos Bal |
| 28 | 333rd | OF Jerry Hairston Jr. ChN |
| 29 | 340th | SP Rocky Biddle Was |