| Round | Overall | Player |
|---|---|---|
| 1 | 3rd | C Mike Piazza NYN |
| 2 | 22nd | SS Barry Larkin Cin |
| 3 | 27th | 3B Dean Palmer Det |
| 4 | 46th | P John Smoltz Atl |
| 5 | 51st | P Tom Glavine Atl |
| 6 | 70th | OF Rondell White Mon |
| 7 | 75th | OF Ray Lankford StL |
| 8 | 94th | 2B Edgardo Alfonzo NYN |
| 9 | 99th | 1B Jason Giambi Oak |
| 10 | 118th | P Juan Acevedo StL |
| 11 | 123rd | P Roy Halladay Tor |
| 12 | 142nd | OF Henry Rodriguez ChN |
| 13 | 147th | P Justin Thompson Det |
| 14 | 166th | P Bob Howry ChA |
| 15 | 171st | P Carlos Perez LA |
| 16 | 190th | OF Ron Gant Phi |
| 17 | 195th | 2B Eric Young LA |
| 18 | 214th | 1B Sean Casey Cin |
| 19 | 219th | P Kelvim Escobar Tor |
| 20 | 238th | SS Tony Batista Ari |
| 21 | 243rd | 3B Adrian Beltre LA |
| 22 | 262nd | OF Gabe Kapler Det |
| 23 | 267th | P Robert Person Tor |
| 24 | 286th | C Giuseppe Chiaramonte SF |
| 25 | 291st | OF Butch Huskey Sea |
| 26 | 310th | P Ramiro Mendoza NYA |
| 27 | 315th | P Chris Carpenter Tor |