| Round | Overall | Player |
|---|---|---|
| 1 | 9th | 1B Mark Teixeira Atl |
| 2 | 16th | OF Vladimir Guerrero LAA |
| 3 | 33rd | OF Vernon Wells Tor |
| 4 | 40th | 3B Garrett Atkins Col |
| 5 | 57th | SS Hanley Ramirez Fla |
| 6 | 64th | 1B Todd Helton Col |
| 7 | 81st | SP John Lackey LAA |
| 8 | 88th | SP Felix Hernandez Sea |
| 9 | 105th | 2B Jeff Kent LAD |
| 10 | 112th | RP Francisco Cordero Cin |
| 11 | 129th | SP Chris Young SD |
| 12 | 136th | OF Torii Hunter LAA |
| 13 | 153rd | OF Nick Markakis Bal |
| 14 | 160th | SP Kevin Millwood Tex |
| 15 | 177th | 3B Chad Tracy Ari |
| 16 | 184th | 2B Brandon Phillips Cin |
| 17 | 201st | SP Tom Glavine Atl |
| 18 | 208th | C Ivan Rodriguez Det |
| 19 | 225th | RP Ryan Dempster ChN |
| 20 | 232nd | SP Mark Prior ChN |
| 21 | 249th | SP Jeff Francis Col |
| 22 | 256th | C A.J. Pierzynski ChA |
| 23 | 273rd | 1B Dan Johnson Oak |
| 24 | 280th | SP Joe Blanton Oak |
| 25 | 297th | SP Livan Hernandez Ari |
| 26 | 304th | DH Mike Sweeney KC |
| 27 | 321st | OF Jeremy Hermida Fla |
| 28 | 328th | RP Dustin Hermanson Cin |
| 29 | 345th | SS Alex Gonzalez Cin |