| Round | Overall | Player |
|---|---|---|
| 1 | 4th | OF Alfonso Soriano ChN |
| 2 | 21st | 1B Justin Morneau Min |
| 3 | 28th | C Jorge Posada NYA |
| 4 | 45th | 3B Troy Glaus Tor |
| 5 | 52nd | SP Carlos Zambrano ChN |
| 6 | 69th | OF Barry Bonds SF |
| 7 | 76th | SP Barry Zito SF |
| 8 | 93rd | RP Joe Borowski Cle |
| 9 | 100th | 2B Ray Durham SF |
| 10 | 117th | OF Gary Matthews Jr. LAA |
| 11 | 124th | SS Edgar Renteria Det |
| 12 | 141st | SP Brad Penny LAD |
| 13 | 148th | RP Brad Lidge Phi |
| 14 | 165th | SP Freddy Garcia Phi |
| 15 | 172nd | OF Austin Kearns Was |
| 16 | 189th | SP Kris Benson Bal |
| 17 | 196th | SP Jamie Moyer Phi |
| 18 | 213th | SP Orlando Hernandez NYN |
| 19 | 220th | C A.J. Pierzynski ChA |
| 20 | 237th | 3B Mike Lowell Bos |
| 21 | 244th | SP Livan Hernandez Ari |
| 22 | 261st | 1B Mike Jacobs Fla |
| 23 | 268th | 3B Brandon Inge Det |
| 24 | 285th | 2B Luis Castillo NYN |
| 25 | 292nd | SS Jack Wilson Pit |
| 26 | 309th | SP Gil Meche KC |
| 27 | 316th | OF Milton Bradley SD |
| 28 | 333rd | SP Joel Pineiro StL |
| 29 | 340th | 1B Kevin Millar Bal |