Italics indicate a traded pick.
| Round | Pick | Original Team | Current Team | Selection | Pos, '01 Team |
| 17 | 1 | Cincinnati | Cincinnati | Matos, Luis | OF, Baltimore |
| 17 | 2 | San Francisco | San Francisco | Hart, Jason | 1B, Oakland |
| 17 | 3 | Toronto | Toronto | Piersoll, Chris | P, Cincinnati |
| 17 | 4 | Cleveland | Cleveland | Stenson, Dernell | OF, Boston |
| 17 | 5 | Montreal | Texas | Castillo, Alberto | C, Toronto |
| 17 | 6 | Boston | Boston | Witt, Bobby | P, Arizona |
| 17 | 7 | Milwaukee | Milwaukee | Nichting, Chris | P, Colorado |
| 17 | 8 | Baltimore | Baltimore | Stephenson, Garrett | P, St. Louis |
| 17 | 9 | Chicago (NL) | Chicago (NL) | Gomez, Chris | SS, Tampa Bay |
| 17 | 10 | Texas | Texas | Mota, Guillermo | P, Montreal |
| 17 | 11 | New York (AL) | New York (AL) | Hiatt, Phil | 3B, Los Angeles |
| 17 | 12 | Los Angeles | Seattle | Alcantara, Israel | OF, Boston |
| 17 | 13 | Houston | Seattle | Acevedo, Juan | P, Florida |
| 17 | 14 | Kansas City | Kansas City | Fuentes, Brian | P, Seattle |
| 17 | 15 | Tampa Bay | Tampa Bay | Curtis, Chad | OF, Texas |
| 17 | 16 | St. Louis | St. Louis | Reed, Keith | OF, Baltimore |
| 17 | 17 | Colorado | Colorado | Cook, Dennis | P, Philadelphia |
| 17 | 18 | Seattle | Seattle | Bigbie, Larry | OF, Baltimore |
| 17 | 19 | New York (NL) | Colorado | Franco, Julio | 1B, Atlanta |
| 17 | 20 | Minnesota | Minnesota | Westbrook, Jake | P, Cleveland |
| 17 | 21 | Detroit | Detroit | Cordero, Francisco | P, Texas |
| 17 | 22 | Pittsburgh | Pittsburgh | Pineda, Luis | P, Detroit |
| 17 | 23 | California | Pittsburgh | Ulacia, Dennis | P, Chicago (AL) |
| 17 | 24 | Philadelphia | Philadelphia | Zinter, Alan | 1B, Houston |
| 18 | 1 | Cincinnati | Cleveland | Wright, Jaret | P, Cleveland |
| 18 | 2 | San Francisco | San Francisco | Raines Sr., Tim | OF, Baltimore |
| 18 | 3 | Cleveland | Cleveland | Blake, Casey | 1B, Baltimore |
| 18 | 4 | Toronto | Toronto | Strong, Joe | P, Florida |
| 18 | 5 | Montreal | Cleveland | Drew, Tim | P, Cleveland |
| 18 | 6 | Boston | Boston | Wendell, Turk | P, Philadelphia |
| 18 | 7 | Baltimore | Baltimore | Bennett, Gary | C, Colorado |
| 18 | 8 | Milwaukee | Milwaukee | Seo, Jae Weong | P, New York (NL) |
| 18 | 9 | Chicago (NL) | Chicago (NL) | Oliver, Darren | P, Texas |
| 18 | 10 | Texas | Texas | Boyd, Jason | P, Philadelphia |
| 18 | 11 | New York (AL) | New York (AL) | Lewis, Derrick | P, Atlanta |
| 18 | 12 | Los Angeles | Los Angeles | Cintron, Alex | SS, Arizona |
| 18 | 13 | Houston | Houston | Parque, Jim | P, Chicago (AL) |
| 18 | 14 | Kansas City | Kansas City | Telemaco, Amaury | P, Philadelphia |
| 18 | 15 | Tampa Bay | Tampa Bay | Santangelo, F.P. | 2B, Oakland |
| 18 | 16 | St. Louis | St. Louis | Pearce, Josh | P, St. Louis |
| 18 | 17 | Colorado | Colorado | Amezaga, Alfredo | SS, Anaheim |
| 18 | 18 | Seattle | Seattle | Aldridge, Cory | OF, Atlanta |
| 18 | 19 | New York (NL) | Colorado | Forbes, P.J. | 2B, Philadelphia |
| 18 | 20 | Detroit | Detroit | Frye, Jeff | 2B, Toronto |
| 18 | 21 | Minnesota | Minnesota | Balfour, Grant | P, Minnesota |
| 18 | 22 | Pittsburgh | Pittsburgh | Bechler, Steve | P, Baltimore |
| 18 | 23 | California | Cleveland | Peters, Chris | P, Montreal |
| 18 | 24 | Philadelphia | Philadelphia | Lawrence, Joe | C, Toronto |
| 19 | 1 | Cincinnati | Texas | Crespo, Cesar | 2B, San Diego |
| 19 | 2 | San Francisco | San Francisco | VOLUNTARY FORFEIT | |
| 19 | 3 | Toronto | Toronto | Mendez, Donaldo | SS, San Diego |
| 19 | 4 | Cleveland | Cleveland | Bacsik, Mike | P, Cleveland |
| 19 | 5 | Montreal | Texas | Perez, Eddie | C, Atlanta |
| 19 | 6 | Boston | Boston | Benes, Andy | P, St. Louis |
| 19 | 7 | Milwaukee | Milwaukee | Day, Zach | P, Montreal |
| 19 | 8 | Baltimore | Baltimore | Reith, Brian | P, Cincinnati |
| 19 | 9 | Chicago (NL) | Chicago (NL) | Wells, Bob | P, Minnesota |
| 19 | 10 | Texas | Texas | Bell, Rob | P, Texas |
| 19 | 11 | New York (AL) | New York (AL) | Ward, Jeremy | P, Arizona |
| 19 | 12 | Los Angeles | Los Angeles | Santos, Angel | 2B, Boston |
| 19 | 13 | Houston | Houston | Almanza, Armando | P, Florida |
| 19 | 14 | Kansas City | Kansas City | Linebrink, Scott | P, Houston |
| 19 | 15 | Tampa Bay | Tampa Bay | Brown, Kevin (MIL) | C, Milwaukee |
| 19 | 16 | St. Louis | St. Louis | Aramboles, Ricardo | P, Cincinnati |
| 19 | 17 | Colorado | Colorado | Fernandez, Tony | 3B, Toronto |
| 19 | 18 | Seattle | Seattle | Woodard, Steve | P, Cleveland |
| 19 | 19 | New York (NL) | Colorado | Lesher, Brian | OF, Milwaukee |
| 19 | 20 | Minnesota | Minnesota | Tracy, Andy | 1B, Montreal |
| 19 | 21 | Detroit | Detroit | Anderson, Brady | OF, Baltimore |
| 19 | 22 | Pittsburgh | Pittsburgh | Miller, Justin | P, Toronto |
| 19 | 23 | California | Pittsburgh | Tucker, T.J. | P, Montreal |
| 19 | 24 | Philadelphia | Philadelphia | Standridge, Jason | P, Tampa Bay |
| 20 | 1 | Cincinnati | Cincinnati | Cassidy, Scott | P, Toronto |
| 20 | 2 | San Francisco | San Francisco | VOLUNTARY FORFEIT | |
| 20 | 3 | Cleveland | Cleveland | Harper, Travis | P, Tampa Bay |
| 20 | 4 | Toronto | Tampa Bay | Lopez, Mendy | 2B, Philadelphia |
| 20 | 5 | Montreal | Cleveland | Snyder, Earl | 1B, New York (NL) |
| 20 | 6 | Boston | Boston | Palmeiro, Orlando | OF, Anaheim |
| 20 | 7 | Baltimore | Baltimore | Thurman, Corey | P, Kansas City |
| 20 | 8 | Milwaukee | Milwaukee | Patterson, John | P, Arizona |
| 20 | 9 | Chicago (NL) | Chicago (NL) | Hawkins, LaTroy | P, Minnesota |
| 20 | 10 | Texas | Texas | Molina, Jose | C, Anaheim |
| 20 | 11 | New York (AL) | New York (AL) | Coffie, Ivanon | 3B, Baltimore |
| 20 | 12 | Los Angeles | Los Angeles | Bonilla, Bobby | 1B, St. Louis |
| 20 | 13 | Houston | Houston | Hutchinson, Chad | P, St. Louis |
| 20 | 14 | Kansas City | Kansas City | Magruder, Chris | OF, Texas |
| 20 | 15 | Tampa Bay | Tampa Bay | Gipson, Charles | OF, Seattle |
| 20 | 16 | St. Louis | St. Louis | Harville, Chad | P, Oakland |
| 20 | 17 | Colorado | Colorado | Grilli, Jason | P, Florida |
| 20 | 18 | Seattle | Seattle | Prince, Tom | C, Minnesota |
| 20 | 19 | New York (NL) | New York (NL) | Nagy, Chuck | P, Cleveland |
| 20 | 20 | Detroit | Detroit | Moehler, Brian | P, Detroit |
| 20 | 21 | Minnesota | Minnesota | Duchsherer, Justin | P, Texas |
| 20 | 22 | Pittsburgh | Pittsburgh | Mieses, Jose | P, Milwaukee |
| 20 | 23 | California | Pittsburgh | Mulholland, Terry | P, Los Angeles |
| 20 | 24 | Philadelphia | Philadelphia | Patterson, Jarrod | 3B, Detroit |