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| | 1 | 10 | Drew Meyer | | SS | 20 | 8/29/1981 | 5-10 | 180 | L | R | MLB | 2006-2006 | University of South Carolina |
| | 6 | 172 | John Barnett | | P | 21 | 1/30/1981 | 6-2 | 190 | B | R | A+ | | Florida Southern College |
| | 7 | 202 | Andrew Tisdale | | P | 21 | 6/9/1981 | 6-0 | 190 | R | R | Rookie | | Chapman University |
| | 8 | 232 | Chris O'Riordan | | 2B | 22 | 1/29/1980 | 5-9 | 180 | R | R | AA | | Stanford University |
| | 9 | 262** | Steven Herce | | P | 21 | 3/23/1981 | 6-3 | 220 | R | R | A- | | Rice University |
| | 10 | 292 | Nate Gold | | 1B | 22 | 6/12/1980 | 6-3 | 220 | R | R | AAA | | Gonzaga University |
| | 11 | 322 | Kiki Bengochea | | P | 21 | 12/4/1980 | 6-2 | 190 | R | R | A+ | | University of Miami (Florida) |
| | 12 | 352 | Erik Thompson | | P | 20 | 6/23/1982 | 5-11 | 180 | R | R | AAA | | Pensacola Junior College |
| | 13 | 382 | Chris Hamblen | | C | 22 | 2/17/1980 | 6-1 | 190 | B | R | A+ | | University of Cincinnati |
| | 14 | 412 | Charles Bilezikjian | | OF | 21 | 11/12/1980 | 5-11 | 180 | R | R | A | | St. John's University |
| | 15 | 442 | Sam Narron | | P | 20 | 7/12/1981 | 6-7 | 210 | L | L | MLB | 2004-2004 | East Carolina University |
| | 16 | 472 | Josh Kreuzer | | 1B | 19 | 9/28/1982 | 6-6 | 240 | R | R | A+ | | West Valley College |
| | 17 | 502 | Chris Wilson | | 3B | | | | 0 | | | - | | Redlands High School (Redlands,CA) |
| | 18 | 532 | Cameron Coughlan | | 2B | 20 | 8/12/1981 | 5-11 | 180 | B | L | AA | | Brigham Young University |
| | 19 | 562 | Jesus Maldonado | | P | | | | 0 | | | - | | Manuel Mediavilla Negron (Humacao,PR) |
| | 20 | 592 | Kameron Loe | | P | 20 | 9/10/1981 | 6-8 | 220 | R | R | MLB | 2004-2007 | Cal State Northridge |
| | 21 | 622 | Jason Mann | | C | 19 | 7/30/1982 | 6-4 | 190 | L | R | A- | | Central Alabama Community College |
| | 22 | 652** | Bobby Andrews | | H | 18 | 12/23/1983 | 6-1 | 195 | R | R | AA | | Rancho Buena Vista High School (Vista,CA) |
| | 23 | 682 | Craig Ringe | | SS | 22 | 3/16/1980 | 5-10 | 180 | R | R | AA | | Central Missouri State University |
| | 24 | 712** | Chad Decker | | | 18 | 5/14/1984 | 6-1 | 185 | L | L | Rookie | | Valley View High School (Moreno Valley,CA) |
| | 25 | 742 | Joel Kirsten | | P | 21 | 5/9/1981 | 6-1 | 180 | L | L | A+ | | Pierce (Wash) Junior College. |
| | 26 | 772 | Julius Smith | | P | 19 | 5/21/1983 | 5-10 | 170 | L | L | - | | Lewiston High School (Lewiston,ID) |
| | 27 | 802 | John McCarthy | | CF | | | | 0 | | | - | | St. Rita High School (Chicago,IL) |
| | 28 | 832** | Jake Tompkins | | P | 22 | 3/10/1980 | 5-11 | 190 | R | R | A+ | | Louisiana State University |
| | 29 | 862 | Nick Shields | | C | 22 | 5/29/1980 | 6-4 | 220 | R | R | A- | | Wright State University |
| | 30 | 892 | Rob Corrado | | P | 21 | 9/13/1980 | 6-6 | 230 | R | R | A | | University of Kentucky |
| | 31 | 922** | Mike Tamulionis | | P | 21 | 8/10/1980 | 6-1 | 175 | R | R | A- | | St. John's University |
| | 32 | 952 | Gary Hogan | | P | 21 | 6/20/1981 | 6-4 | 200 | R | R | AA | | University of Arkansas |
| | 33 | 982 | Larry Grayson | | 2B | 19 | 7/28/1982 | 5-10 | 180 | R | R | AA | | Manatee Community College |
| | 34 | 1012 | Charles Fletcher | | LF | | | | 0 | | | - | | North Springs High School (Atlanta,GA) |
| | 35 | 1042 | Kenneth Pokryfke | | P | | | | 0 | | | - | | Wilmot High School (Twin Lakes,WI) |
| | 36 | 1072 | Frans Meyer | | 3B | | | | 0 | | | - | | Northridge High School (Clearfield,UT) |
| | 37 | 1102 | Dion McDaniel | | CF | | | | 0 | | | - | | Hales Franciscan High School (Chicago,IL) |
| | 38 | 1132** | Robert Wachman | | P | 20 | 4/10/1982 | 6-4 | 205 | R | R | A | | Middle Georgia College |
| | 39 | 1162** | P.J. Sandoval | | P | 18 | 2/21/1984 | 6-1 | 194 | R | R | College | | Trabuco Hills High School (Mission Viejo,CA) |
| | 40 | 1192** | Jared Gaston | | SS-LF | 18 | 4/15/1984 | 6-2 | 195 | R | R | AAA | | Cleveland High School (Cleveland,TN) |
| | 41 | 1222 | Andrew Myette | | P | | | | 0 | | | - | | Kwantlen College |
| | 42 | 1252 | Jesse Chavez | | P | 18 | 8/21/1983 | 6-2 | 153 | R | R | AAA | | Riverside Community College |
| | 43 | 1281 | Ronald Harris | | C | | | | 0 | | | - | | George Washington High School (Denver,CO) |
| | 44 | 1309 | Ryan Mieszala | | LF-RF | | | | 0 | | | - | | Greenway High School (Phoenix,AZ) |
| | 45 | 1336 | Tom Zimmerman | | P | | | | 0 | | | College | | Whitnall (Hales Corner,Wis) |
| | 46 | 1363** | Josh Hernandez | | 2B | 18 | 11/2/1983 | | | R | R | - | | Los Lunas High School (Los Lunas,NM) |
| | 47 | 1389 | Mike Oseguera | | | | | | | | | College | | La Costa Canyon High School (Encinitas,CA) |
| | 48 | 1415 | Steven Friend | | SS-OF | | | | 0 | | | - | | Kishwaukee Community College |
| | 49 | 1441 | Brad Burkhead | | RF | | | | | | | College | | Northwest Mississippi Community College |
| | 50 | 1465 | Will Peterson | | CF-LF | | | | 0 | | | - | | Valdosta High School (Valdosta,GA) |
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