| Round | Overall | Player |
|---|---|---|
| 1 | 4th | 2B Alfonso Soriano NYA |
| 2 | 21st | SS Derek Jeter NYA |
| 3 | 28th | 1B Carlos Delgado Tor |
| 4 | 45th | OF Luis Gonzalez Ari |
| 5 | 52nd | RP Mariano Rivera NYA |
| 6 | 69th | OF Preston Wilson Col |
| 7 | 76th | SP Tom Glavine NYN |
| 8 | 93rd | SP Roger Clemens NYA |
| 9 | 100th | OF Austin Kearns Cin |
| 10 | 117th | SP A.J. Burnett Fla |
| 11 | 124th | 3B Mike Lowell Fla |
| 12 | 141st | C Mike Lieberthal Phi |
| 13 | 148th | DH Edgar Martinez Sea |
| 14 | 165th | OF Bob Higginson Det |
| 15 | 172nd | OF J.D. Drew StL |
| 16 | 189th | SP Orlando Hernandez Mon |
| 17 | 196th | SP Rick Reed Min |
| 18 | 213th | 3B Fernando Tatis Mon |
| 19 | 220th | SP Brett Tomko StL |
| 20 | 237th | SP Pedro Astacio NYN |
| 21 | 244th | 1B Randall Simon ChN |
| 22 | 261st | RP Anthony Alford ChN |
| 23 | 268th | SP Andy Ashby LA |
| 24 | 285th | OF Corey Patterson ChN |
| 25 | 292nd | 2B Eric Young SF |
| 26 | 309th | C Mitch Meluskey Hou |
| 27 | 316th | RP Tim Spooneybarger Fla |
| 28 | 333rd | RP Dave Veres ChN |
| 29 | 340th | SS Royce Clayton Mil |