| Round | Overall | Player |
|---|---|---|
| 1 | 4th | SS Derek Jeter NYA |
| 2 | 21st | OF Barry Bonds SF |
| 3 | 28th | OF Albert Belle Bal |
| 4 | 45th | SP Orlando Hernandez NYA |
| 5 | 52nd | 1B Jason Giambi Oak |
| 6 | 69th | RP Matt Mantei Ari |
| 7 | 76th | RP Robb Nen SF |
| 8 | 93rd | OF Tim Salmon Ana |
| 9 | 100th | SP Kerry Wood ChN |
| 10 | 117th | SP Andy Ashby Phi |
| 11 | 124th | SP David Wells Tor |
| 12 | 141st | RP Paul Shuey Cle |
| 13 | 148th | OF Jeffrey Hammonds Col |
| 14 | 165th | SP Russ Ortiz SF |
| 15 | 172nd | 3B Ken Caminiti Hou |
| 16 | 189th | C Eddie Taubensee Cin |
| 17 | 196th | OF Cliff Floyd Fla |
| 18 | 213th | SP Javier Vazquez Mon |
| 19 | 220th | SP Todd Stottlemyre Ari |
| 20 | 237th | SP Scott Elarton Hou |
| 21 | 244th | 2B Mike Lansing Col |
| 22 | 261st | SP Ismael Valdez ChN |
| 23 | 268th | C John Flaherty TB |
| 24 | 285th | OF Carlos Lee ChA |
| 25 | 292nd | 1B J.T. Snow SF |
| 26 | 309th | 3B Cal Ripken Bal |
| 27 | 316th | SP Mike Sirotka ChA |