| Round | Overall | Player |
|---|---|---|
| 1 | 7th | SS Nomar Garciaparra Bos |
| 2 | 18th | 1B Jeff Bagwell Hou |
| 3 | 31st | OF Luis Gonzalez Ari |
| 4 | 42nd | 1B Phil Nevin SD |
| 5 | 55th | SP Barry Zito Oak |
| 6 | 66th | SP Kerry Wood ChN |
| 7 | 79th | SP Wade Miller Hou |
| 8 | 90th | SP Mark Buehrle ChA |
| 9 | 103rd | 3B Edgardo Alfonzo NYN |
| 10 | 114th | OF Preston Wilson Fla |
| 11 | 127th | OF Pat Burrell Phi |
| 12 | 138th | OF Jose Cruz Jr Tor |
| 13 | 151st | SP Kelvim Escobar Tor |
| 14 | 162nd | C Toby Hall TB |
| 15 | 175th | SP Roy Halladay Tor |
| 16 | 186th | SP Joel Pineiro Sea |
| 17 | 199th | 1B Carlos Pena Oak |
| 18 | 210th | DH Ellis Burks Cle |
| 19 | 223rd | 2B Todd Walker Cin |
| 20 | 234th | SP Eric Gagne LA |
| 21 | 247th | 3B Eric Hinske Tor |
| 22 | 258th | SP Jason Johnson Bal |
| 23 | 271st | C Mitch Meluskey Det |
| 24 | 282nd | OF Reggie Sanders SF |
| 25 | 295th | 2B Mark Grudzielanek LA |
| 26 | 306th | SP Scott Erickson Bal |
| 27 | 319th | C Raul Casanova Mil |
| 28 | 330th | SS Carlos Guillen Sea |
| 29 | 343rd | OF Marlon Byrd Phi |