| Round | Overall | Player |
|---|---|---|
| 1 | 7th | 2B Alfonso Soriano NYA |
| 2 | 18th | SP Curt Schilling Ari |
| 3 | 31st | 1B Jeff Bagwell Hou |
| 4 | 42nd | C Ivan Rodriguez Fla |
| 5 | 55th | RP Mariano Rivera NYA |
| 6 | 66th | RP Troy Percival Ana |
| 7 | 79th | RP Billy Koch ChA |
| 8 | 90th | 3B Aramis Ramirez ChN |
| 9 | 103rd | OF Austin Kearns Cin |
| 10 | 114th | SS Rich Aurilia SF |
| 11 | 127th | 3B Jose Hernandez Pit |
| 12 | 138th | SP Roger Clemens NYA |
| 13 | 151st | OF Jose Cruz Jr SF |
| 14 | 162nd | 3B Joe Crede ChA |
| 15 | 175th | SP John Lackey Ana |
| 16 | 186th | SP Mike Hampton Atl |
| 17 | 199th | OF Jay Payton Col |
| 18 | 210th | OF Richard Hidalgo Hou |
| 19 | 223rd | SP Brett Tomko StL |
| 20 | 234th | OF Kevin Millar Bos |
| 21 | 247th | SP Joe Mays Min |
| 22 | 258th | OF Kevin Mench Tex |
| 23 | 271st | OF Juan Encarnacion Fla |
| 24 | 282nd | SP Sidney Ponson SF |
| 25 | 295th | 1B Tino Martinez StL |
| 26 | 306th | SS Julio Lugo TB |
| 27 | 319th | SP Shawn Estes ChN |
| 28 | 330th | 2B Adam Kennedy Ana |
| 29 | 343rd | C Mike Matheny StL |