| Round | Overall | Player |
|---|---|---|
| 1 | 9th | 1B Todd Helton Col |
| 2 | 16th | OF Shawn Green LA |
| 3 | 33rd | 1B Mike Sweeney KC |
| 4 | 40th | SP Tim Hudson Oak |
| 5 | 57th | SP Matt Morris StL |
| 6 | 64th | 2B Jose Vidro Mon |
| 7 | 81st | OF Cliff Floyd NYN |
| 8 | 88th | RP Ugueth Urbina Fla |
| 9 | 105th | RP Kelvim Escobar Tor |
| 10 | 112th | SP A.J. Burnett Fla |
| 11 | 129th | SP Jeff Weaver NYA |
| 12 | 136th | SP Matt Clement ChN |
| 13 | 153rd | 3B Adrian Beltre LA |
| 14 | 160th | SS David Eckstein Ana |
| 15 | 177th | OF J.D. Drew StL |
| 16 | 184th | OF Tim Salmon Ana |
| 17 | 201st | C Damian Miller ChN |
| 18 | 208th | SP Kris Benson Pit |
| 19 | 225th | OF Brad Wilkerson Mon |
| 20 | 232nd | C Victor Martinez Cle |
| 21 | 249th | 2B Brandon Phillips Cle |
| 22 | 256th | SP Jake Peavy SD |
| 23 | 273rd | 3B Sean Burroughs SD |
| 24 | 280th | OF Michael Cuddyer Min |
| 25 | 297th | SP Jeremy Affeldt KC |
| 26 | 304th | C Josh Bard Cle |
| 27 | 321st | 1B Jeff Liefer TB |
| 28 | 328th | SS Ramon Vazquez SD |
| 29 | 345th | SP Carlos Zambrano ChN |