| 2 | 52 | June-Reg | John Elway | OF | 21 | 6-3 | 215 | | | A- | | Stanford University | |
| 3 | 64 | June-Reg | Scott Bradley | C | 21 | 5-11 | 185 | L | R | MLB | 1984-1992 | University of North Carolina | |
| 3 | 77 | June-Reg | Phil Lombardi | C | 18 | 6-2 | 200 | R | R | MLB | 1986-1989 | Kennedy (Granada Hills,CA) | |
| 4 | 103 | June-Reg | Eric Plunk | P | 17 | 6-6 | 224 | R | R | MLB | 1986-1999 | Bellflower (Bellflower,CA) | |
| 5 | 129** | June-Reg | Dennis Lubert | P | | | | | | A+ | | University of South Carolina | |
| 6 | 155 | June-Reg | Mike Pagliarulo | 3B | 21 | 6-2 | 195 | L | R | MLB | 1984-1995 | University of Miami | |
| 7 | 181 | June-Reg | Andy Swope | P | | | | | | A | | Otterbein College | |
| 8 | 207** | June-Reg | John Fishel | OF | 18 | 5-11 | 185 | R | R | MLB | 1988-1988 | Loara (Anaheim,CA) | |
| 9 | 233 | June-Reg | Fred McGriff | 1B | 17 | 6-3 | 215 | L | L | MLB | 1986-2004 | Jefferson (Tampa,FL) | |
| 10 | 259 | June-Reg | Matt Gallegos | SS | 21 | 5-8 | 170 | B | R | AA | | San Francisco State University | |
| 11 | 285 | June-Reg | Tom Jones | OF | | | | | | A+ | | University of North Carolina at Wilmington | |
| 12 | 311 | June-Reg | David Repass | p | | | | | | - | | Louisburg College | |
| 13 | 337 | June-Reg | David Woodworth | p | 21 | 6-2 | 185 | L | L | AA | | Western Michigan University | |
| 14 | 363 | June-Reg | Mike Browning | p | 21 | 6-2 | 205 | R | R | AAA | | University of Miami | |
| 15 | 389 | June-Reg | Mike Reddish | C-OF | | | | | | AAA | | Florida International University | |
| 16 | 415 | June-Reg | Mike Speeney | SS | | | | | | Rookie | | Council Rock South (Southampton,PA) | |
| 17 | 441 | June-Reg | Dick Scott | SS | 18 | 6-1 | 170 | R | R | MLB | 1989-1989 | Ellsworth (Ellsworth,ME) | |
| 18 | 467 | June-Reg | Pat Bone | OF | | | | | | A- | | Florida International University | |
| 19 | 493 | June-Reg | Bob Tewksbury | p | 20 | 6-4 | 206 | R | R | MLB | 1986-1998 | Saint Leo University | |
| 20 | 519 | June-Reg | Logan Easley | p | 19 | 6-1 | 185 | R | R | MLB | 1987-1989 | College of Southern Idaho | |
| 21 | 545 | June-Reg | Steve Swinney | OF | | | | | | Rookie | | Thornwood (South Holland,IL) | |
| 22 | 570 | June-Reg | Steve Scafa | 2B | | | | | | A- | | St. John's University | |
| 23 | 595 | June-Reg | Gary Kempton | C | | | | | | A+ | | Southern Illinois University | |
| 24 | 620** | June-Reg | Les Lancaster | p | 19 | 6-2 | 200 | R | R | MLB | 1987-1993 | Nimitz (Irving,TX) | |
| 25 | 644 | June-Reg | Mark Silva | p | | | | | | AAA | | Cal Poly | |
| 26 | 667 | June-Reg | Paul Doty | p | | | | | | A | | Brigham Young University | |
| 27 | 689** | June-Reg | Mark Shiflett | p | 22 | 6-1 | 200 | R | L | AA | | Auburn University | |
| 28 | 711 | June-Reg | Larry Mikesell | p | | | | | | A | | University of Florida | |
| 29 | 732 | June-Reg | Mike Siwiec | p | | | | | | A+ | | Triton College | |
| 30 | 751** | June-Reg | Ken Reed | p | | | | | | A+ | | Tuslaw (Masillon,OH) | |
| 31 | 768 | June-Reg | Greg Zunino | OF | | | | | | A+ | | University of California | |
| 32 | 784 | June-Reg | Bob Bomerito | 3B | | | | | | A | | Wichita State University | |
| 33 | 798 | June-Reg | Larry Lewis | p | | | | | | A- | | Prospect (Mount Prospect,IL) | |
| 34 | 810** | June-Reg | Mark Baker | p | | | | | | - | | Palm Beach Community College | |
| 35 | 819** | June-Reg | Derek Vanacore | Of | | | | | | A+ | | Sacramento (Sacramento,CA) | |
| 36 | 828** | June-Reg | Bill Stevenson | 1B | | | | | | AA | | St. Thomas Aquinas (Fort Lauderdale,FL) | |
| 37 | 835 | June-Reg | Meade Palmer | Of | | | | | | Rookie | | Philadelphia College of Pharmacy | |
| 38 | 841 | June-Reg | Stan Williams | p | | | | | | A+ | | USC | |
| 39 | 844 | June-Reg | Scott Smith | Of | | | | | | Rookie | | Kent County (Chestertown,MD) | |
| 1 | 5** | June-Sec | Phil Lane | 3B | 19 | | | | | A+ | | Broward College | |
| 2 | 30 | June-Sec | Trent Ferrin | P | | | | | | A- | | College of Southern Idaho | |
| 3 | 53 | June-Sec | Bill Williams | 1B | | | | | | - | | Solano Community College | |
| 4 | 69 | June-Sec | David Niemiec | P | | | | | | A | | West Valley College | |
| 5 | 74 | June-Sec | Shane O'Shea | IF | | | | | | A | | Indian River State College | |
| 6 | 78 | June-Sec | John Hughes | 1B | | | | | | - | | College of Southern Idaho | |
| 1 | 26 | Jan-Reg | Mike Gatlin | OF | | | | | | A- | | Lurleen B. Wallace Community College | |
| 2 | 52 | Jan-Reg | Ed Darling | 1B | | | | | | A | | | |
| 3 | 78 | Jan-Reg | Kurt Eskildsen | P | | | | | | Rookie | | Los Angeles Harbor College | |
| 4 | 104 | Jan-Reg | Mark Blaser | 3B | | | | | | AA | | Butte College | |
| 5 | 130 | Jan-Reg | Johnny Hawkins | C | | | | | | AAA | | Pensacola Junior College | |
| 6 | 155 | Jan-Reg | Boyce Bailey | P | | | | | | A | | Pensacola Junior College | |
| 7 | 180** | Jan-Reg | David Niemiec | P | | | | | | A | | San Jose City College | |
| 8 | 201 | Jan-Reg | Howard Maynor | 3B | | | | | | A- | | Merced College | |
| 9 | 219 | Jan-Reg | Millard Williams | 1B | | | | | | Rookie | | Solano Community College | |
| 10 | 236 | Jan-Reg | David Aragon | SS | | | | | | - | | Santa Barbara City College | |
| 11 | 249 | Jan-Reg | Mike Isherwood | C | | | | | | AA | | College of the Sequoias | |
| 12 | 261 | Jan-Reg | Eric Call | 1B-OF | | | | | | College | | Palm Beach Community College | |
| 13 | 273** | Jan-Reg | Rick Knapp | p | 19 | | | | | AAA | | Indian River State College | |
| 14 | 283 | Jan-Reg | Donald Bragg | OF | 20 | 6-0 | 200 | R | R | - | | Lurleen B. Wallace Community College | |
| 15 | 292 | Jan-Reg | Jeffrey Allen | p | | | | | | - | | Harry S. Truman College | |
| 16 | 300 | Jan-Reg | Brent Main | p | | | | | | - | | College of the Sequoias | |
| 17 | 305 | Jan-Reg | Kevin Bascue | OF-1B | | | | | | - | | Garden City Community College | |
| 18 | 309** | Jan-Reg | Mike Costello | p | | | | | | AAA | | Centralia College | |
| 19 | 311 | Jan-Reg | Kelly Pfalier | OF | | | | | | - | | Lane College | |
| 1 | 16** | Jan-Sec | Rod Langston | OF | 20 | 6-0 | 210 | R | R | - | | Indian River State College | |
| 2 | 42** | Jan-Sec | Todd Schulz | OF | | | | | | - | | Central Arizona College | |
| 3 | 64 | Jan-Sec | Brian Peck | P | | | | | | - | | College of Southern Idaho | |
| 4 | 73 | Jan-Sec | Randy Edwards | P | | | | | | - | | Allegany College of Maryland | |