| Round | Overall | Player |
|---|---|---|
| 1 | 6th | SP Randy Johnson Ari |
| 2 | 19th | SP Mike Mussina NYA |
| 3 | 30th | 2B Edgardo Alfonzo NYN |
| 4 | 43rd | SP Roger Clemens NYA |
| 5 | 54th | RP Robb Nen SF |
| 6 | 67th | RP John Rocker Atl |
| 7 | 78th | 1B Ryan Klesko SD |
| 8 | 91st | OF Garret Anderson Ana |
| 9 | 102nd | SS Neifi Perez Col |
| 10 | 115th | SP Rick Helling Tex |
| 11 | 126th | RP Tim Crabtree Tex |
| 12 | 139th | 3B Joe Randa KC |
| 13 | 150th | 3B Vinny Castilla Hou |
| 14 | 163rd | SP Gil Heredia Oak |
| 15 | 174th | OF Dante Bichette Bos |
| 16 | 187th | C Ben Molina Ana |
| 17 | 198th | C Ramon Hernandez Oak |
| 18 | 211th | SS Royce Clayton ChA |
| 19 | 222nd | SP Rick Ankiel StL |
| 20 | 235th | 1B J.T. Snow SF |
| 21 | 246th | OF Todd Hollandsworth Col |
| 22 | 259th | 2B Jerry Hairston Jr. Bal |
| 23 | 270th | OF Paul O'Neill NYA |
| 24 | 283rd | OF Alex Ochoa Cin |
| 25 | 294th | 2B Mark McLemore Sea |
| 26 | 307th | OF B.J. Surhoff Atl |
| 27 | 318th | SS Rey Sanchez KC |
| 28 | 331st | 3B Tony Fernandez Mil |
| 29 | 342nd | SP Rob Bell Cin |