| Year | Rnd | Ovl | Phase | Player | Drafting Team | Pos | HiLvl | Played | Src | Drafted From | SF | State | AB | 2B | 3B | HR | RBI | SB | BAVG | W | L | ERA | SV | IP | SO | GS |
| 1986 | 1 | 1 | Jan-Reg | Jeff Shaw | Cleveland Indians | P | MLB | 1986-2001 | C | Cuyahoga Community College | SF | OH | 38 | 0 | 0 | 0 | 0 | 0 | .079 | 34 | 54 | 3.54 | 203 | 848 | 545 | 19 |
| 1986 | 1 | 2 | Jan-Reg | Moises Alou | Pittsburgh Pirates | OF | MLB | 1986-2008 | C | Canada College | SF | CA | 7037 | 421 | 39 | 332 | 1287 | 106 | .303 | -- | -- | -- | -- | -- | -- | -- |
| 1986 | 1 | 3 | Jan-Reg | Chris Shiflett | Texas Rangers | P | AA | 1986-1992 | C | Santiago Canyon College | SF | CA | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- |
| 1986 | 1 | 4 | Jan-Reg | Mike Jones ** | San Francisco Giants | P | AA | 1988-1990 | C | Cosumnes River College | SF | CA | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- |
| 1986 | 1 | 5 | Jan-Reg | Ronald Anderson | Milwaukee Brewers | P | RK | 1986-1987 | C | Georgia Perimeter College | SF | GA | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- |
| 1986 | 1 | 6 | Jan-Reg | Bob Jones | Atlanta Braves | P | - | C | Citrus College | SF | CA | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | |
| 1986 | 1 | 7 | Jan-Reg | Jim Pritikin | Seattle Mariners | OF | A+ | 1986-1989 | C | San Diego Mesa College | SF | CA | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- |
| 1986 | 1 | 8 | Jan-Reg | Jesse Allison | Philadelphia Phillies | P | A- | 1986-1986 | C | Labette Community College | SF | KS | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- |
| 1986 | 1 | 9 | Jan-Reg | Jarvis Brown | Minnesota Twins | IF | MLB | 1986-1998 | C | Triton College | SF | IL | 227 | 11 | 2 | 1 | 10 | 13 | .203 | -- | -- | -- | -- | -- | -- | -- |
| 1986 | 1 | 10 | Jan-Reg | Shawn Boskie | Chicago Cubs | P | MLB | 1986-2001 | C | Modesto Junior College | SF | CA | 145 | 5 | 2 | 1 | 8 | 0 | .179 | 49 | 63 | 5.14 | 1 | 870 | 494 | 132 |
| 1986 | 1 | 11 | Jan-Reg | Tim Herrmann ** | Oakland Athletics | P | A | 1989-1990 | C | Blinn College | SF | TX | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- |
| 1986 | 1 | 12 | Jan-Reg | Doug Brocail | San Diego Padres | P | MLB | 1986-2009 | C | Lamar Community College | SF | CO | 69 | 0 | 1 | 0 | 1 | 2 | .174 | 52 | 48 | 4.00 | 9 | 880 | 642 | 42 |
| 1986 | 1 | 13 | Jan-Reg | Alan Mills | Boston Red Sox | P | MLB | 1986-2007 | C | Polk State College | SF | FL | 5 | 0 | 0 | 0 | 1 | 0 | .000 | 39 | 32 | 4.12 | 15 | 636 | 456 | 5 |
| 1986 | 1 | 14 | Jan-Reg | Ervin Houston ** | Houston Astros | OF | A- | 1987-1987 | C | Laney College | SF | CA | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- |
| 1986 | 1 | 15 | Jan-Reg | Glenn Twardy | Baltimore Orioles | OF | A- | 1989-1989 | C | Cerritos College | SF | CA | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- |
| 1986 | 1 | 16 | Jan-Reg | Randy Bouman | Montreal Expos | P | RK | 1986-1987 | C | Cypress College | SF | CA | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- |
| 1986 | 1 | 17 | Jan-Reg | Jeff Cesari ** | Detroit Tigers | P | A- | 1989-1989 | C | Taft College | SF | CA | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- |
| 1986 | 1 | 18 | Jan-Reg | Ron Wenrich | Cincinnati Reds | OF | RK | 1985-1986 | C | University of Georgia | SF | GA | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- |
| 1986 | 1 | 19 | Jan-Reg | Hernan Admaes | Chicago White Sox | IF | A+ | 1987-1988 | C | Miami-Dade College | SF | FL | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- |
| 1986 | 1 | 20 | Jan-Reg | Tim Anderson | Los Angeles Dodgers | IF | A+ | 1986-1987 | C | Sacramento City College | SF | CA | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- |
| 1986 | 1 | 21 | Jan-Reg | Brandy Vann | California Angels | P | AAA | 1986-1994 | C | Butler Community College | SF | KS | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- |
| 1986 | 1 | 22 | Jan-Reg | Mike Thompson | New York Mets | P | - | C | Mira Costa College | SF | CA | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | |
| 1986 | 1 | 23 | Jan-Reg | Kevin Maynagh | Kansas City Royals | P | - | C | Shelton State Community College | SF | AL | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | |
| 1986 | 1 | 24 | Jan-Reg | Stan Barrs | St. Louis Cardinals | IF | A | 1986-1988 | C | Florida State College at Jacksonville | SF | FL | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- |
| 1986 | 1 | 25 | Jan-Reg | Jay Makemson | New York Yankees | P | A+ | 1987-1989 | C | Orange County Community College | SF | NY | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- |
| 1986 | 1 | 26 | Jan-Reg | Morgan Roderick | Toronto Blue Jays | P | A- | 1986-1986 | C | Georgia Perimeter College | SF | GA | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- |