| Round | Overall | Player |
|---|---|---|
| 1 | 11th | OF Sammy Sosa ChN |
| 2 | 14th | OF Manny Ramirez Cle |
| 3 | 35th | RP Billy Wagner Hou |
| 4 | 38th | 1B Todd Helton Col |
| 5 | 59th | SS Barry Larkin Cin |
| 6 | 62nd | SP Kevin Millwood Atl |
| 7 | 83rd | 2B Ray Durham ChA |
| 8 | 86th | 3B Dean Palmer Det |
| 9 | 107th | DH Jose Canseco TB |
| 10 | 110th | OF Carlos Beltran KC |
| 11 | 131st | SP Andy Ashby Phi |
| 12 | 134th | SP Andy Pettitte NYA |
| 13 | 155th | RP Bob Howry ChA |
| 14 | 158th | SP Aaron Sele Sea |
| 15 | 179th | SP Chan Ho Park LA |
| 16 | 182nd | SP Eric Milton Min |
| 17 | 203rd | SP Francisco Cordova Pit |
| 18 | 206th | SP Ismael Valdez ChN |
| 19 | 227th | SP Rick Reed NYN |
| 20 | 230th | OF J.D. Drew StL |
| 21 | 251st | SP Andy Benes StL |
| 22 | 254th | SP Sterling Hitchcock SD |
| 23 | 275th | SP Steve Woodard Mil |
| 24 | 278th | C Ben Petrick Col |
| 25 | 299th | 2B Randy Velarde Oak |
| 26 | 302nd | C Matthew LeCroy Min |
| 27 | 323rd | 1B David Ortiz Min |