| Round | Overall | Player |
|---|---|---|
| 1 | 10th | SP Johan Santana Min |
| 2 | 15th | 1B Nomar Garciaparra ChN |
| 3 | 34th | OF Barry Bonds SF |
| 4 | 39th | SP Ben Sheets Mil |
| 5 | 58th | OF Sammy Sosa Bal |
| 6 | 63rd | SP Jake Peavy SD |
| 7 | 82nd | 2B Bret Boone Min |
| 8 | 87th | SP Josh Beckett Fla |
| 9 | 106th | SP A.J. Burnett Fla |
| 10 | 111th | 1B Phil Nevin Tex |
| 11 | 130th | OF Ken Griffey Jr Cin |
| 12 | 135th | SP Jaret Wright NYA |
| 13 | 154th | SP Matt Morris StL |
| 14 | 159th | OF Bernie Williams NYA |
| 15 | 178th | DH Frank Thomas ChA |
| 16 | 183rd | SP John Thomson Atl |
| 17 | 202nd | OF Raul Ibanez Sea |
| 18 | 207th | 3B Bill Mueller Bos |
| 19 | 226th | SS Angel Berroa KC |
| 20 | 231st | SP Horacio Ramirez Atl |
| 21 | 250th | C A.J. Pierzynski ChA |
| 22 | 255th | 2B Tony Womack NYA |
| 23 | 274th | 1B Ryan Klesko SD |
| 24 | 279th | SP Gil Meche Sea |
| 25 | 298th | 1B Jay Gibbons Bal |
| 26 | 303rd | OF Jose Cruz Jr LAD |
| 27 | 322nd | OF Carl Everett ChA |
| 28 | 327th | 3B Joe Crede ChA |
| 29 | 346th | C Damian Miller Mil |