| Round | Overall | Player |
|---|---|---|
| 1 | 9th | C Mike Piazza NYN |
| 2 | 16th | 2B Roberto Alomar Cle |
| 3 | 33rd | 3B Fernando Tatis StL |
| 4 | 40th | RP John Wetteland Tex |
| 5 | 57th | SP Greg Maddux Atl |
| 6 | 64th | RP Roberto Hernandez TB |
| 7 | 81st | RP Billy Koch Tor |
| 8 | 88th | SS Neifi Perez Col |
| 9 | 105th | SP Tom Glavine Atl |
| 10 | 112th | OF Matt Stairs Oak |
| 11 | 129th | OF Kenny Lofton Cle |
| 12 | 136th | 1B John Olerud Sea |
| 13 | 153rd | OF J.D. Drew StL |
| 14 | 160th | 1B Erubiel Durazo Ari |
| 15 | 177th | SP Mike Sirotka ChA |
| 16 | 184th | OF Geoff Jenkins Mil |
| 17 | 201st | SP Rick Helling Tex |
| 18 | 208th | SP Livan Hernandez SF |
| 19 | 225th | SP Alex Fernandez Fla |
| 20 | 232nd | SP Sidney Ponson Bal |
| 21 | 249th | 1B Mark Grace ChN |
| 22 | 256th | SP Roy Halladay Tor |
| 23 | 273rd | 3B Scott Brosius NYA |
| 24 | 280th | SP Steve Woodard Mil |
| 25 | 297th | SP Kip Wells ChA |
| 26 | 304th | C Bobby Estalella SF |
| 27 | 321st | OF Jose Cruz Jr Tor |