| Round | Overall | Player |
|---|---|---|
| 1 | 12th | OF Kenny Lofton Atl |
| 2 | 13th | 2B Carlos Baerga NYN |
| 3 | 36th | P Hideo Nomo LA |
| 4 | 37th | 3B Chipper Jones Atl |
| 5 | 60th | P Roger Clemens Tor |
| 6 | 61st | 1B Fred McGriff Atl |
| 7 | 84th | OF Johnny Damon KC |
| 8 | 85th | OF Tony Gwynn SD |
| 9 | 108th | OF Rickey Henderson Ana |
| 10 | 109th | SS Derek Jeter NYA |
| 11 | 132nd | OF Gregg Jefferies Phi |
| 12 | 133rd | OF Lenny Dykstra Phi |
| 13 | 156th | P Ken Hill Ana |
| 14 | 157th | P Ricky Bottalico Phi |
| 15 | 180th | P Carlos Perez Mon |
| 16 | 181st | P Chan Ho Park LA |
| 17 | 204th | OF Lance Johnson ChN |
| 18 | 205th | OF Ruben Rivera SD |
| 19 | 228th | P Jose Rijo Cin |
| 20 | 229th | OF Michael Tucker Atl |
| 21 | 252nd | OF Cliff Floyd Fla |
| 22 | 253rd | P Dwight Gooden NYA |
| 23 | 276th | C Tom Pagnozzi StL |
| 24 | 277th | P Michael Mimbs Phi |
| 25 | 300th | OF Brooks Kieschnick ChN |
| 26 | 301st | P Terry Burrows SD |