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| | 1 | 5 | Clint Everts | | P | 17 | 8/10/1984 | 6-2 | 170 | R | R | A+ | | exists High School (-) |
| | 2 | 46 | Darrell Rasner | | P | 21 | 1/13/1981 | 6-3 | 210 | R | R | MLB | 2005-2007 | University of Nevada |
| | 3 | 77 | Larry Broadway | | IF | 21 | 12/17/1980 | 6-4 | 230 | L | L | AAA | | Duke University |
| | 4 | 107 | Jon Felfoldi | | P | 20 | 7/6/1981 | 6-1 | 180 | L | L | AA | | Glendale Community College (CA) |
| | 5 | 137 | Anthony Pearson | | P | 20 | 8/14/1981 | 6-3 | 190 | R | R | A+ | | Jackson State University |
| | 6 | 167 | Chad Chop | | OF | 19 | 3/21/1983 | 6-3 | 215 | L | L | A+ | | Vanderbilt University |
| | 7 | 197 | Mike O'Connor | | P | 21 | 8/17/1980 | 6-3 | 170 | L | L | MLB | 2006-2006 | George Washington University |
| | 8 | 227** | Friedel Pinkston | | P | 18 | 2/3/1984 | 6-3 | 200 | R | R | Rookie | | Hart County High School (Hartwell,GA) |
| | 9 | 257 | Chris Barlow | | P | 21 | 11/11/1980 | 6-6 | 210 | R | R | A+ | | Le Moyne College |
| | 10 | 287** | Justin Azze | | P | 19 | 9/14/1982 | 6-3 | 205 | L | L | A- | | Orange County Community College |
| | 11 | 317 | Jay Bergmann | | P | 20 | 9/25/1981 | 6-4 | 185 | R | R | MLB | 2005-2007 | Rutgers University |
| | 12 | 347 | Daniel Rueckel | | P | 22 | 9/25/1979 | 6-0 | 165 | R | R | AAA | | Furman University |
| | 13 | 377 | Brett Nyquist | | P | 21 | 5/7/1981 | 6-7 | 200 | L | L | AA | | College of Saint Scholastica (Minn.) |
| | 14 | 407 | Erik Fiedler | | P | 23 | 11/27/1978 | 6-4 | 190 | R | R | A | | San Diego State University |
| | 15 | 437 | Isaiah Wright | | P | 18 | 7/21/1983 | 6-1 | 170 | R | R | A- | | Dover High School (Dover,DE) |
| | 16 | 467 | Brian Ellerson | | IF | 22 | 9/18/1979 | 6-1 | 195 | R | R | A+ | | Montclair State University |
| | 17 | 497 | Jason Conlisk | | IF | 20 | 7/8/1981 | 5-10 | 180 | B | R | A | - | Fordham University |
| | 18 | 527 | Tony Brown | | OF | 22 | 9/5/1979 | 6-1 | 190 | B | R | A | | George Washington University |
| | 19 | 557 | Franklyn Jimenez | | 1B-OF | 20 | 2/23/1982 | 6-2 | 180 | R | R | A | | Muscatine Community College |
| | 20 | 587 | Tim Sweeney | | IF | 21 | 8/3/1980 | 6-3 | 195 | R | R | A | | Rutgers University |
| | 21 | 617 | Stockton Davis | | P | 22 | 9/8/1979 | 6-3 | 210 | R | R | A+ | | Oral Roberts University |
| | 22 | 647 | Marcus Davis | | | | | | | | | College | | Luray High School (Luray,VA) |
| | 23 | 677 | Nathan Weese | | IF | 22 | 5/15/1980 | 6-0 | 195 | L | R | A- | | University of Utah |
| | 24 | 707 | Matt Swope | | OF | 22 | 6/1/1980 | 6-0 | 185 | R | R | A | - | University of Maryland |
| | 25 | 737 | Adrian Urquhart | | OF | 22 | 10/1/1979 | 6-1 | 190 | R | R | A- | | Alabama State University |
| | 26 | 767 | Maurice Cobb | | OF | 18 | 5/23/1984 | 6-1 | 190 | R | R | A- | | Rocky Mount High School (Rocky Mount,NC) |
| | 27 | 797 | Matt Bonovich | | | | | | | | | College | | USC |
| | 28 | 827** | Tony Irvin | | P | 19 | 12/13/1982 | 6-5 | 230 | R | R | Rookie | | Hillsborough Community College |
| | 29 | 857 | Timothy Hudnall | | 1B | | | | 0 | | | - | | Lake Michigan College |
| | 30 | 887** | Robert Rohrbaugh | | | 18 | 12/28/1983 | 6-2 | 195 | R | R | AAA | | Littlestown High School (Littlestown,PA) |
| | 31 | 917** | Reuben Kerbs | | P | 21 | 10/19/1980 | 6-2 | 185 | L | L | A+ | | Wichita State University |
| | 32 | 947 | Cameron O'Donnell | | P | | | | 0 | | | - | | Middle Georgia College |
| | 33 | 977 | Andrew Wells | | | | | | | | | College | | St. Stephens & St Agnes High School (Alexandria,VA) |
| | 34 | 1007 | Jack Lyons | | | | | | | | | College | | Maret School High School (Washington,DC) |
| | 35 | 1037** | Sean White | | P | 21 | 4/25/1981 | 6-4 | 200 | R | R | MLB | 2007-2007 | University of Washington |
| | 36 | 1067 | Jeff Miller | | 1B | | | | 0 | | | - | | Pine Grove Area High School (Pine Grove,PA) |
| | 37 | 1097 | Jarvis Hicks | | P | | | | 0 | | | - | | South Florida Community College |
| | 38 | 1127 | Nick Ponomarenko | | | | | | | | | College | | Cuesta College |
| | 39 | 1157** | Jonathan Hunton | | P | 19 | 11/30/1982 | 6-9 | 260 | R | R | A+ | | Miami-Dade College |
| | 40 | 1187 | Bryan Coffey | | P | | | | 0 | | | - | | Culpeper County High School (Culpeper,VA) |
| | 41 | 1217 | Michael Romeo | | 3B | | | | 0 | | | - | | Lindenhurst High School (Lindenhurst,NY) |
| | 42 | 1247** | Randy Dicken | | P | 19 | 8/19/1982 | 6-2 | 198 | R | R | A | | Allegany College of Maryland |
| | 43 | 1277** | Brody Taylor | | P | 19 | 1/12/1983 | 6-2 | 205 | R | L | College | | Louisburg College |
| | 44 | 1305** | Michael Gibbs | | P | 17 | 9/18/1984 | 6-5 | 195 | R | R | - | | Roxborough High School (Philadelphia,PA) |
| | 45 | 1333** | Jon Link | | | 18 | 3/23/1984 | 6-1 | 175 | R | R | A+ | | Chantilly High School (Chantilly,VA) |
| | 46 | 1360 | Marc Nunez | | P | | | | 0 | | | - | | Countryside High School (Clearwater,FL) |
| | 47 | 1386** | Ronald Ball | | P | | | | 0 | | | College | | Kennedy High School (La Palma,CA) |
| | 48 | 1412 | Ken Beck | | P | 22 | 2/3/1980 | 6-2 | 190 | R | R | A- | | University of Maryland |
| | 49 | 1438 | James Treece | | P | | | | 0 | | | - | | Orange County Community College |
| | 50 | 1462 | Joe Gregory | | P | | | | 0 | | | - | | Western High School (Davie,FL) |
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