| ^ Denotes player returned to Duke; ! Denotes January secondary draft | |||||
| Year | Name | Pos. | Organization | Round | Overall |
| 2018 | Griffin Conine | OF | Toronto Blue Jays | 2nd | 52 |
| 2018 | Jimmy Herron | OF | Chicago Cubs | 3rd | 98 |
| 2018 | Jack Labosky | RHP | Tampa Bay Rays | 22nd | 660 |
| 2018 | Chris Proctor | C | Detroit Tigers | 13th | 375 |
| 2018 | Zack Kone | SS | Pittsburgh Pirates | 13th | 384 |
| 2018 | Ethan DeCaster | RHP | Detroit Tigers | 18th | 525 |
| 2018 | Mitch Stallings | LHP | Atlanta Braves | 30th | 892 |
| 2017 | Justin Bellinger | 1B | Cincinnati Reds | 22nd | 647 |
| 2017 | James Ziemba | LHP | Los Angeles Angels | 22nd | 655 |
| 2017 | Jimmy Herron | OF | New York Yankees | 31st | 932 |
| 2016 | Bailey Clark | RHP | Chicago Cubs | 5th | 164 |
| 2016 | James Ziemba ^ | LHP | Philadelphia Phillies | 37th | 1,097 |
| 2016 | Brian McAfee | RHP | Tampa Bay Rays | 38th | 1,140 |
| 2015 | Michael Matuella | RHP | Texas Rangers | 3rd | 78 |
| 2015 | Sarkis Ohanian | RHP | Cincinnati Reds | 9th | 265 |
| 2015 | Kenny Koplove | RHP | Philadelphia Phillies | 17th | 504 |
| 2015 | Andrew Istler | RHP | Los Angeles Dodgers | 23rd | 702 |
| 2015 | James Marvel | RHP | Pittsburgh Pirates | 36th | 1,087 |
| 2014 | Drew Van Orden | RHP | Washington Nationals | 5th | 154 |
| 2014 | Jordan Betts | 3B | Boston Red Sox | 18th | 554 |
| 2014 | Robert Huber | RHP | Oakland Athletics | 26th | 792 |
| 2012 | Marcus Stroman | RHP | Toronto Athletics | 1st | 22 |
| 2011 | Dennis O'Grady | RHP | San Diego Padres | 34th | 1,043 |
| 2010 | Jake Lemmerman | SS | Los Angeles Dodgers | 5th | 172 |
| 2010 | Chris Manno | LHP | Washington Nationals | 26th | 776 |
| 2010 | Jeremy Gould | LHP | New York Mets | 28th | 842 |
| 2010 | Michael Ness | RHP | Houston Astros | 33rd | 993 |
| 2009 | Nate Freiman | 1B | San Diego Padres | 8th | 234 |
| 2009 | Andrew Wolcott | RHP | Arizona Diamondbacks | 17th | 516 |
| 2009 | Matt Williams | C | Chicago Cubs | 18th | 560 |
| 2009 | Alex Hassan | RHP/OF | Boston Red Sox | 20th | 618 |
| 2009 | Chris Manno ^ | LHP | Washington Nationals | 38th | 1,132 |
| 2009 | Tim Sherlock | OF | Arizona Diamondbacks | 40th | 1,206 |
| 2009 | Michael Ness ^ | RHP | San Francisco Giants | 47th | 1,407 |
| 2008 | Nate Freiman ^ | 1B | Texas Rangers | 28th | 843 |
| 2007 | Jimmy Gallagher | OF | Chicago White Sox | 7th | 239 |
| 2007 | Brett Bartles | INF | Cincinnati Reds | 30th | 919 |
| 2007 | Tony Bajocsky | RHP | Boston Red Sox | 34th | 1,041 |
| 2004 | Tim Layden | LHP/INF | Chicago Cubs | 6th | 186 |
| 2004 | Zach Schreiber | RHP | Atlanta Braves | 16th | 491 |
| 2004 | Brian Patrick | OF | Toronto Blue Jays | 25th | 740 |
| 2002 | Larry Broadway | 1B | Montreal Expos | 3rd | 77 |
| 2002 | Kevin Kelly | INF | San Francisco Giants | 5th | 157 |
| 2001 | J.D. Alleva | INF | Kansas City Royals | 24th | 715 |
| 1999 | Vaughn Schill | SS | Seattle Mariners | 4th | 125 |
| 1999 | Chris Capuano | LHP | Ariazona Diamondbacks | 8th | 238 |
| 1999 | Stephen Cowie | RHP | Seattle Mariners | 9th | 287 |
| 1998 | Jeff Becker | 3B | Milwaukee Brewers | 20th | 596 |
| 1998 | Gregg Maluchnik | C | Atlanta Braves | 20th | 611 |
| 1997 | Richard Dishman | RHP | Atlanta Braves | 23rd | 712 |
| 1996 | Scott Schoeneweis | LHP | California Angels | 3rd | 85 |
| 1996 | David Darwin | LHP | Detroit Tigers | 26th | 761 |
| 1996 | Richard Dishman ^ | RHP | San Francisco Giants | 46th | 1,345 |
| 1996 | Mike King | OF | Tampa Bay Devil Rays | 62nd | 1,613 |
| 1995 | Ray Farmer | OF | Seattle Mariners | 61st | 1,522 |
| 1994 | Ryan Jackson | LHP/OF | Florida Marlins | 7th | 180 |
| 1994 | Sean McNally | 3B | Kansas City Royals | 16th | 443 |
| 1994 | Scott Pinoni | 1B | Kansas City Royals | 20th | 555 |
| 1992 | Mike Kotarski | LHP | Colorado Rockies | 20th | 571 |
| 1992 | Quenton McCracken | 2B | Colorado Rockies | 25th | 771 |
| 1991 | John Courtright | LHP | Cincinnati Reds | 8th | 224 |
| 1990 | Tim Rumer | LHP | New York Yankees | 8th | 213 |
| 1990 | Tim Roberts | LHP | Seattle Mariners | 75th | 1,445 |
| 1989 | Mike Trombley | RHP | Minnesota Twins | 14th | 371 |
| 1988 | John Furch | 1B | Chicago White Sox | 23rd | 587 |
| 1984 | Ron Bianco | 2B | Chicago Cubs | 24th | 599 |
| 1984 | Tommy Decker | C | Cleveland Indians | 41st | 812 |
| 1983 | Todd Lamb | RHP | Atlanta Braves | 10th | 256 |
| 1982 | Tom Brassil | SS | San Diego Padres | 6th | 135 |
| 1981 | Tom Brassil ^ | SS | Detroit Tigers | 15th | 380 |
| 1980 | Kevin Rigby | 2B | Atlanta Braves | 14th | 341 |
| 1979 | Larry Doby | OF | Chicago White Sox | 34th | 811 |
| 1976 | Steve Kesses ! | OF | New York Mets | 1st | 16 |
| 1972 | Brian Bochow | SS | Pittsburgh Pirates | 32nd | 699 |
| 1971 | Alan Schwartz | P | Cincinnati Reds | 3rd | |
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