| 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 |
| 1988 | 2 | 31 | June-Reg | Kelly Lifgren | San Diego Padres | P | AA | 1988-1993 | C | Glendale Community College | SF | CA | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- |
| 1988 | 2 | 32 | June-Reg | Brian Johnson ** | Cleveland Indians | C | MLB | 1989-2001 | C | University of Texas | SF | TX | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- |
| 1988 | 2 | 33 | June-Reg | Jimmy Kremers | Atlanta Braves | C | MLB | 1988-1995 | C | University of Arkansas | SF | AR | 73 | 1 | 1 | 1 | 2 | 0 | .110 | -- | -- | -- | -- | -- | -- | -- |
| 1988 | 2 | 34 | June-Reg | Arthur Rhodes | Baltimore Orioles | P-OF | MLB | 1988-2011 | H | La Vega (Waco,TX) | SF | TX | 6 | 0 | 0 | 0 | 0 | 0 | .167 | 87 | 70 | 4.08 | 33 | 1188 | 1152 | 61 |
| 1988 | 2 | 35 | June-Reg | Wynn Beck ** | Oakland Athletics | C | AA | 1988-1992 | H | South Brunswick (Southport,NC) | SF | NC | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- |
| 1988 | 2 | 36 | June-Reg | Tim Morrow | Texas Rangers | OF | AAA | 1988-1997 | H | South Alamance (Graham,NC) | SF | NC | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- |
| 1988 | 2 | 37 | June-Reg | Mica Lewis | Houston Astros | SS | AA | 1988-1993 | C | Cal State Los Angeles | SF | CA | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- |
| 1988 | 2 | 38 | June-Reg | Scott Ebert | San Francisco Giants | P | A | 1988-1991 | H | Edmond Memorial (Edmond,OK) | SF | OK | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- |
| 1988 | 2 | 39 | June-Reg | Ben Howze | Montreal Expos | P | A+ | 1988-1994 | H | Washington (Pensacola,FL) | SF | FL | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- |
| 1988 | 2 | 40 | June-Reg | Lenny Brutcher | Chicago White Sox | P | A+ | 1988-1992 | H | Cicero-North Syracuse (Cicero,NY) | SF | NY | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- |
| 1988 | 2 | 41 | June-Reg | Matt Murray | Atlanta Braves | P | MLB | 1988-1999 | H | Loomis Chaffee School (Windsor,CT) | SF | CT | 2 | 0 | 0 | 0 | 0 | 0 | .500 | 0 | 3 | 9.64 | 0 | 14 | 4 | 2 |
| 1988 | 2 | 42 | June-Reg | Andy Rush | Boston Red Sox | P | A+ | 1988-2003 | H | Somerset (Somerset,PA) | SF | PA | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- |
| 1988 | 2 | 43 | June-Reg | Keith Richardson | Pittsburgh Pirates | P | AA | 1988-1990 | C | Georgia Southern University | SF | GA | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- |
| 1988 | 2 | 44 | June-Reg | Greg Pirkl | Seattle Mariners | C | MLB | 1988-1999 | H | Los Alamitos (Los Alamitos,CA) | SF | CA | 116 | 4 | 0 | 8 | 16 | 0 | .224 | -- | -- | -- | -- | -- | -- | -- |
| 1988 | 2 | 45 | June-Reg | Jeff Branson | Cincinnati Reds | SS | MLB | 1989-2002 | C | University of West Alabama | SF | AL | 1555 | 72 | 11 | 34 | 156 | 9 | .246 | -- | -- | -- | -- | -- | -- | -- |
| 1988 | 2 | 46 | June-Reg | Joe Slusarski | Oakland Athletics | P | MLB | 1989-2001 | C | University of New Orleans | SF | LA | 9 | 0 | 0 | 0 | 1 | 0 | .111 | 13 | 21 | 5.18 | 3 | 306 | 173 | 34 |
| 1988 | 2 | 47 | June-Reg | Chris Hancock | San Francisco Giants | P | AAA | 1988-1996 | H | Fontana (Fontana,CA) | SF | CA | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- |
| 1988 | 2 | 48 | June-Reg | Bob Hamelin | Kansas City Royals | 1B | MLB | 1988-1999 | C | Santiago Canyon College | SF | CA | 1272 | 70 | 3 | 67 | 209 | 11 | .246 | -- | -- | -- | -- | -- | -- | -- |
| 1988 | 2 | 49 | June-Reg | Chris Nabholz | Montreal Expos | P | MLB | 1989-1995 | C | Towson University | SF | MD | 178 | 3 | 0 | 0 | 4 | 0 | .107 | 37 | 35 | 3.94 | 0 | 612 | 405 | 100 |
| 1988 | 2 | 50 | June-Reg | Alan Newman | Minnesota Twins | P | MLB | 1988-2006 | C | Fullerton College | SF | CA | -- | -- | -- | -- | -- | -- | -- | 2 | 2 | 7.94 | 0 | 17 | 20 | 0 |
| 1988 | 2 | 51 | June-Reg | Jeff Seale ** | New York Mets | P | - | H | Fairview (Boulder,CO) | SF | CO | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | |
| 1988 | 2 | 52 | June-Reg | Dave Silvestri | Houston Astros | SS | MLB | 1989-1999 | C | University of Missouri | SF | MO | 336 | 12 | 3 | 6 | 36 | 4 | .202 | -- | -- | -- | -- | -- | -- | -- |
| 1988 | 2 | 53 | June-Reg | Mike Hensley | St. Louis Cardinals | P | A | 1986-1990 | C | University of Oklahoma | SF | OK | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- |
| 1988 | 2 | 54 | June-Reg | Randy Snyder | Milwaukee Brewers | OF | AAA | 1988-1995 | C | Washington State University | SF | WA | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- |
| 1988 | 2 | 55 | June-Reg | Tim Hodge | Toronto Blue Jays | OF | AA | 1988-1993 | H | Callaway (Jackson,MS) | SF | MS | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- |
| 1988 | 2 | 56 | June-Reg | Scott Livingstone | Detroit Tigers | 3B | MLB | 1988-2001 | C | Texas A&M University | SF | TX | 1533 | 76 | 4 | 17 | 177 | 10 | .281 | -- | -- | -- | -- | -- | -- | -- |
| 1988 | 2 | 57 | June-Reg | John Kupsey | Atlanta Braves | 3B | AA | 1988-1994 | H | Gloucester Catholic (Gloucester,NJ) | SF | NJ | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- |