| Round | Overall | Player |
|---|---|---|
| 1 | 8th | 1B Carlos Delgado Tor |
| 2 | 17th | SS Nomar Garciaparra Bos |
| 3 | 32nd | C Jason Kendall Pit |
| 4 | 41st | 3B Tony Batista Tor |
| 5 | 56th | RP Armando Benitez NYN |
| 6 | 65th | SP Chan Ho Park LA |
| 7 | 80th | OF Raul Mondesi Tor |
| 8 | 89th | SP Andy Pettitte NYA |
| 9 | 104th | SP Jeff D'Amico Mil |
| 10 | 113th | SP Rick Helling Tex |
| 11 | 128th | SP Aaron Sele Sea |
| 12 | 137th | SP Shawn Estes SF |
| 13 | 152nd | OF Ellis Burks Cle |
| 14 | 161st | RP Tim Crabtree Tex |
| 15 | 176th | SS Julio Lugo Hou |
| 16 | 185th | OF Matt Lawton Ret |
| 17 | 200th | 2B Quilvio Veras Atl |
| 18 | 209th | OF Roger Cedeno Det |
| 19 | 224th | OF Steve Finley Ari |
| 20 | 233rd | C Brook Fordyce Bal |
| 21 | 248th | 2B Carlos Febles KC |
| 22 | 257th | SS Deivi Cruz Det |
| 23 | 272nd | 3B Craig Paquette StL |
| 24 | 281st | SP Brad Penny Fla |
| 25 | 296th | 1B Mark Grace Ari |
| 26 | 305th | OF Ray Lankford StL |
| 27 | 320th | OF Gerald Williams TB |
| 28 | 329th | OF Tony Gwynn SD |
| 29 | 344th | C Ben Davis SD |