| Round | Overall | Player |
|---|---|---|
| 1 | 2nd | 1B Albert Pujols StL |
| 2 | 23rd | OF Sammy Sosa ChN |
| 3 | 26th | SP Kerry Wood ChN |
| 4 | 47th | SP Roy Oswalt Hou |
| 5 | 50th | SS Rafael Furcal Atl |
| 6 | 71st | SP Brandon Webb Ari |
| 7 | 74th | OF Andruw Jones Atl |
| 8 | 95th | OF Geoff Jenkins Mil |
| 9 | 98th | 1B Eric Hinske Tor |
| 10 | 119th | OF Austin Kearns Cin |
| 11 | 122nd | SP Jose Contreras ChA |
| 12 | 143rd | 1B Phil Nevin SD |
| 13 | 146th | SP Freddy Garcia ChA |
| 14 | 167th | OF Johnny Damon Bos |
| 15 | 170th | SP Jeremy Affeldt KC |
| 16 | 191st | C Charles Johnson Col |
| 17 | 194th | 3B Jose Valentin ChA |
| 18 | 215th | 3B Edgardo Alfonzo SF |
| 19 | 218th | SP David Wells SD |
| 20 | 239th | 1B Brad Fullmer Tex |
| 21 | 242nd | SP Cliff Lee Cle |
| 22 | 263rd | SP Byung-Hyun Kim Bos |
| 23 | 266th | 2B Mark Grudzielanek ChN |
| 24 | 287th | SP Tony Armas Jr. Mon |
| 25 | 290th | 2B Fernando Vina Det |
| 26 | 311th | C Michael Barrett ChN |
| 27 | 314th | 1B Prince Fielder Mil |
| 28 | 335th | SP Erik Bedard Bal |
| 29 | 338th | 3B Andy Marte Atl |