| Round | Overall | Player |
|---|---|---|
| 1 | 11th | 1B Jim Thome Phi |
| 2 | 14th | 1B Jason Giambi NYA |
| 3 | 35th | SP John Smoltz Atl |
| 4 | 38th | OF Brian S. Giles SD |
| 5 | 59th | OF Aubrey Huff TB |
| 6 | 62nd | SP Bartolo Colon Ana |
| 7 | 83rd | OF Shawn Green LA |
| 8 | 86th | SP Greg Maddux ChN |
| 9 | 107th | RP Joe Borowski ChN |
| 10 | 110th | SP Joel Pineiro Sea |
| 11 | 131st | C Mike Lieberthal Phi |
| 12 | 134th | 3B Corey Koskie Min |
| 13 | 155th | 2B Ray Durham SF |
| 14 | 158th | SS Jimmy Rollins Phi |
| 15 | 179th | SP Mark Redman Oak |
| 16 | 182nd | 3B Jose Valentin ChA |
| 17 | 203rd | RP David Riske Cle |
| 18 | 206th | SP Jerome Williams SF |
| 19 | 227th | SP Jeff Weaver LA |
| 20 | 230th | OF Jermaine Dye Oak |
| 21 | 251st | 3B Vinny Castilla Col |
| 22 | 254th | C Victor Martinez Cle |
| 23 | 275th | SP Tomo Ohka Mon |
| 24 | 278th | 2B Adam Kennedy Ana |
| 25 | 299th | SP Darrell May KC |
| 26 | 302nd | OF Jose Cruz Jr TB |
| 27 | 323rd | 1B Doug Mientkiewicz Bos |
| 28 | 326th | SP Jon Lieber NYA |
| 29 | 347th | OF Matt Lawton Cle |