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| | 1 | 8** | Wade Townsend | | P | 21 | 2/22/1983 | 6-4 | 230 | R | R | A | | Rice University |
| | 3 | 79 | Jeff Fiorentino | $$ | C | 21 | 4/14/1983 | 6-1 | 180 | L | R | MLB | 2005-2006 | Florida Atlantic University |
| | 4 | 109 | Brad Bergesen | | P | 18 | 9/25/1985 | 6-2 | 205 | L | R | A+ | | Foothill High School (Pleasanton,CA) |
| | 5 | 139 | C.J. Smith | | OF | 22 | 2/22/1982 | 6-4 | 212 | R | R | A | | University of Florida |
| | 6 | 169 | Bryce Chamberlin | | P | 21 | 12/22/1982 | 6-2 | 195 | R | R | A | | Washington State University |
| | 7 | 199** | Seth Johnston | | 2B | 21 | 3/12/1983 | 6-3 | 198 | R | R | A+ | | University of Texas |
| | 8 | 229 | David Haehnel | | P | 21 | 7/21/1982 | 6-4 | 180 | L | L | AA | | University of Illinois-Chicago |
| | 9 | 259 | Joey Howell | | OF | 18 | 9/22/1985 | 6-1 | 205 | R | R | A | | Santaluces High School (Lantana,FL) |
| | 10 | 289 | Drew Moffitt | | OF | 22 | 8/19/1981 | 6-2 | 210 | R | R | A | | Wichita State University |
| | 11 | 319 | Kevin Hart | | P | 21 | 12/29/1982 | 6-4 | 215 | R | R | MLB | 2007-2007 | University of Maryland |
| | 12 | 349 | Dan Puente | | C | 22 | 12/3/1981 | 6-3 | 200 | R | R | A | | Bradley University |
| | 13 | 379 | Denver Kitch | | SS | 23 | 11/25/1980 | 6-2 | 180 | R | R | A | | Oklahoma City University |
| | 14 | 409 | Kyle Schmidt | | P | 20 | 8/25/1983 | 6-3 | 220 | R | R | A | | University of South Florida |
| | 15 | 439** | Will Venable | | OF | 21 | 10/29/1982 | 6-2 | 205 | L | L | AA | | Princeton University |
| | 16 | 469 | Andy Schindling | | P | 17 | 8/15/1986 | 6-2 | 165 | R | R | A- | | St. John's College High School (Washington,DC) |
| | 17 | 499 | Kyle Boehm | | P | | | | | | | A- | | Oakland University |
| | 18 | 529 | Trent Baysinger | | P | 22 | 9/1/1981 | 6-1 | 185 | L | L | A+ | | University of Washington |
| | 19 | 559 | Matt McGuirk | | OF | | | | | | | College | | Arlington Heights High School (Fort Worth,TX) |
| | 20 | 589 | Jonathan Tucker | | 2B | 20 | 7/2/1983 | 5-7 | 167 | B | R | A+ | | University of Florida |
| | 21 | 619 | Ryan Finan | | 1B | 22 | 1/5/1982 | 6-5 | 220 | L | R | A+ | | Lamar University |
| | 22 | 649 | Rob Marconi | | 3B | 21 | 9/14/1982 | 6-1 | 200 | R | R | A | | Northern Illinois University |
| | 23 | 679 | Ryan Schwabe | | P | 22 | 2/24/1982 | 6-3 | 210 | L | L | A | | University of Louisiana-Monroe |
| | 24 | 709 | Dale Mollenhauer | | SS | 18 | 6/26/1986 | 5-10 | 170 | L | R | Rookie | | Pine Richland High School (Gibsonia,PA) |
| | 25 | 739 | Zach Minor | | P | | | | | | | Rookie | | Northern Illinois University |
| | 26 | 769 | Kevin Kotch | | C | 19 | 8/31/1984 | 6-4 | 235 | L | R | A- | | Cecil Community College (MD) |
| | 27 | 799 | Cody Wargo | | C | 22 | 12/13/1981 | 6-3 | 210 | R | R | A+ | | Indiana University |
| | 28 | 829 | Alex Graham | | P | | | | | | | College | | University of the Pacific |
| | 29 | 859 | Marc Young | | P | | | | | | | - | | Riverside High School (Greer,SC) |
| | 30 | 889 | Jaime Garcia | | P | | | | | | | - | | Sharyland High School (Sharyland,TX) |
| | 31 | 919 | Matthew Garnett | | P | 19 | 12/26/1984 | 6-7 | 220 | L | L | - | | Bakersfield Junior College |
| | 32 | 949 | Jeff Jeffords | | P | 19 | 11/4/1984 | 6-0 | 200 | R | R | Rookie | | Spartanburg Methodist College |
| | 33 | 979 | Jared Elmore | | P | | | | | | | - | | Raymond High School (Raymond,MS) |
| | 34 | 1009 | Nick Burns | | C | | | | | | | - | | Palomar College |
| | 35 | 1039 | Drew Crisp | | SS | | | | | | | - | | Riverside High School (Greer,SC) |
| | 36 | 1069 | Derik Drewett | | P | 19 | 2/16/1985 | 6-5 | 185 | R | R | College | | University of Arkansas-Fort Smith |
| | 37 | 1099 | Ian Harrington | | P | 19 | 4/23/1985 | 6-1 | 195 | L | L | A- | | Bellevue Community College (WA) |
| | 38 | 1129 | Adam Crisp | | OF | | | | | | | College | | Riverside High School (Greer,SC) |
| | 39 | 1159 | Larry Hill | | P | | | | | | | - | | Smit High School (Spring Branch,TX) |
| | 40 | 1189 | Jason Roach | | P | | | | | | | - | | Sacramento City College |
| | 41 | 1219 | Demetrios Marinos | | C | | | | | | | - | | Steinert High School (Trenton,NJ) |
| | 42 | 1248 | Brian Blackburn | | C | | | | | | | College | | Kellogg Community College |
| | 43 | 1277** | Bryan Casey | | C | 18 | 6/5/1986 | 6-1 | 200 | R | R | Rookie | | Kofa High School (Yuma,AZ) |
| | 44 | 1306** | Leonardo Calderon | | P | 17 | 7/31/1986 | 5-11 | 170 | L | L | Rookie | | Puerto Rico Baseball Academy High School (Gurabo,PR) |
| | 45 | 1335 | Samuel Basta | | P | 18 | 2/21/1986 | 6-0 | 165 | L | L | Rookie | | Marquette High School (Milwaukee,WI) |
| | 46 | 1364 | Casey Larson | | OF | | | | | | | College | | Paso Robles High School (Paso Robles,CA) |
| | 47 | 1393 | Bailey Daniels | | P | | | | | | | College | | Manteo High School (Manteo,NC) |
| | 48 | 1422** | Matt Lane | | P | 19 | 8/17/1984 | 6-8 | 225 | R | R | A | | Iowa Western Community College |
| | 49 | 1450 | Clifton Turner | | OF | | | | | | | - | | CCBC Catonsville |
| | 50 | 1478 | Michael Banks | | P | | | | | | | - | | Lake Michigan College |
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