| Round | Overall | Player |
|---|---|---|
| 1 | 12th | SS Nomar Garciaparra Bos |
| 2 | 13th | OF Richard Hidalgo Hou |
| 3 | 36th | SP Bartolo Colon Cle |
| 4 | 37th | 3B Eric Chavez Oak |
| 5 | 60th | SP Roger Clemens NYA |
| 6 | 61st | C Jorge Posada NYA |
| 7 | 84th | 1B Sean Casey Cin |
| 8 | 85th | RP Jason Isringhausen Oak |
| 9 | 108th | RP John Rocker Atl |
| 10 | 109th | 1B Pat Burrell Phi |
| 11 | 132nd | OF Garret Anderson Ana |
| 12 | 133rd | SP Kris Benson Pit |
| 13 | 156th | SP Javier Vazquez Mon |
| 14 | 157th | 2B Luis Castillo Fla |
| 15 | 180th | SP Glendon Rusch NYN |
| 16 | 181st | C Jason Varitek Bos |
| 17 | 204th | SP Tony Armas Jr. Mon |
| 18 | 205th | RP Tom Gordon ChN |
| 19 | 228th | OF Jay Payton NYN |
| 20 | 229th | 2B Jose Offerman Bos |
| 21 | 252nd | SS Carlos Guillen Sea |
| 22 | 253rd | 3B Chris Stynes Bos |
| 23 | 276th | 3B Todd Zeile NYN |
| 24 | 277th | SP Kirk Rueter SF |
| 25 | 300th | OF Ray Lankford StL |
| 26 | 301st | DH Jose Canseco Ana |
| 27 | 324th | RP Rich Garces Bos |
| 28 | 325th | SP Brad Penny Fla |
| 29 | 348th | OF Trot Nixon Bos |