| Round | Pick # | Team | Selection | Pos, '01 Team |
| 12 | 1 | San Francisco | Stein, Blake | P, Kansas City |
| 12 | 2 | Boston | Zambrano, Carlos | P, Chicago (NL) |
| 12 | 3 | Baltimore | Bell, David | 3B, Seattle |
| 12 | 4 | Texas | Batista, Tony | 3B, Baltimore |
| 12 | 5 | Los Angeles | Reynolds, Shane | P, Houston |
| 12 | 6 | Colorado | Redmond, Mike | C, Florida |
| 13 | 1 | Colorado | Thomson, John | P, Colorado |
| 13 | 2 | Los Angeles | Giambi, Jeremy | OF, Oakland |
| 13 | 3 | Texas | Martinez, Tino | 1B, New York (AL) |
| 13 | 4 | Baltimore | Mesa, Jose | P, Philadelphia |
| 13 | 5 | Boston | Shuey, Paul | P, Cleveland |
| 13 | 6 | San Francisco | White, Devon | OF, Milwaukee |
| 14 | 1 | San Francisco | Gwynn, Tony | OF, San Diego |
| 14 | 2 | Boston | Daubach, Brian | 1B, Boston |
| 14 | 3 | Baltimore | Reese, Pokey | 2B, Cincinnati |
| 14 | 4 | Texas | Quevedo, Ruben | P, Milwaukee |
| 14 | 5 | Los Angeles | Valdes, Ismael | P, Anaheim |
| 14 | 6 | Colorado | Ligtenberg, Kerry | P, Atlanta |
| 15 | 1 | Colorado | Lee, Travis | 1B, Philadelphia |
| 15 | 2 | Los Angeles | Gutierrez, Ricky | SS, Chicago (NL) |
| 15 | 3 | Texas | Reichert, Dan | P, Kansas City |
| 15 | 4 | Baltimore | Davis, Doug | P, Texas |
| 15 | 5 | Boston | Maduro, Calvin | P, Baltimore |
| 15 | 6 | San Francisco | Remlinger, Mike | P, Atlanta |
| 16 | 1 | San Francisco | Colbrunn, Greg | 1B, Arizona |
| 16 | 2 | Boston | LeCroy, Matt | C, Minnesota |
| 16 | 3 | Baltimore | Stinnett, Kelly | C, Cincinnati |
| 16 | 4 | Texas | Jones, Bobby J. | P, San Diego |
| 16 | 5 | Los Angeles | Tyner, Jason | OF, Tampa Bay |
| 16 | 6 | Colorado | Riedling, John | P, Cincinnati |
| 17 | 1 | Colorado | Levine, Al | P, Anaheim |
| 17 | 2 | Los Angeles | Lamb, Mike | 3B, Texas |
| 17 | 3 | Texas | Lankford, Ray | OF, San Diego |
| 17 | 4 | Baltimore | Spencer, Shane | OF, New York (AL) |
| 17 | 5 | Boston | Gil, Benji | SS, Anaheim |
| 17 | 6 | San Francisco | Benjamin, Mike | 3B, Pittsburgh |
| 18 | 1 | San Francisco | Dellucci, David | OF, Arizona |
| 18 | 2 | Boston | Wilkerson, Brad | OF, Montreal |
| 18 | 3 | Baltimore | Rios, Armando | OF, Pittsburgh |
| 18 | 4 | Texas | Graffanino, Tony | 3B, Chicago (AL) |
| 18 | 5 | Los Angeles | Ginter, Matt | P, Chicago (AL) |
| 18 | 6 | Colorado | Cox, Steve | 1B, Tampa Bay |
| 19 | 1 | Colorado | Offerman, Jose | 2B, Boston |
| 19 | 2 | Los Angeles | Clayton, Royce | SS, Chicago (AL) |
| 19 | 3 | Texas | Sirotka, Mike | P, Toronto |
| 19 | 4 | Baltimore | Richard, Chris | 1B, Baltimore |
| 19 | 5 | Boston | Williamson, Scott | P, Cincinnati |
| 19 | 6 | San Francisco | Magnante, Mike | P, Oakland |
| 20 | 1 | San Francisco | Sauerbeck, Scott | P, Pittsburgh |
| 20 | 2 | Boston | Yan, Esteban | P, Tampa Bay |
| 20 | 3 | Baltimore | Ibanez, Raul | OF, Kansas City |
| 20 | 4 | Texas | Tomko, Brett | P, Seattle |
| 20 | 5 | Los Angeles | Pena, Juan | P, Boston |
| 20 | 6 | Colorado | Martinez, Dave | OF, Atlanta |
| 21 | 1 | Colorado | Roberts, Grant | P, New York (NL) |
| 21 | 2 | Los Angeles | Miller, Justin | P, Oakland |
| 21 | 3 | Texas | Hernandez, Orlando | P, New York (AL) |
| 21 | 4 | Baltimore | Johnson, Mark (CHA) | C, Chicago (AL) |
| 21 | 5 | Boston | Hundley, Todd | C, Chicago (NL) |
| 21 | 6 | San Francisco | Velarde, Randy | 2B, New York (AL) |
| 22 | 1 | San Francisco | Rivera, Ruben | OF, Cincinnati |
| 22 | 2 | Boston | Reed, Steve | P, Atlanta |
| 22 | 3 | Baltimore | Feliz, Pedro | 3B, San Francisco |
| 22 | 4 | Texas | Mantei, Matt | P, Arizona |
| 22 | 5 | Los Angeles | Taylor, Reggie | OF, Philadelphia |
| 22 | 6 | Colorado | Paul, Josh | C, Chicago (AL) |