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| | 1 | 1 | Joe Mauer | $$ | C | 18 | 4/19/1983 | 6-4 | 220 | L | R | MLB | 2004-2007 | Cretin-Derham Hall High School (St. Paul,MN) |
| | 2 | 45 | Scott Tyler | $$ | P | 18 | 8/20/1982 | 6-5 | 210 | R | R | AA | | Downington High School (Downington,PA) |
| | 3 | 77 | Jose Morales | $$ | SS | 18 | 2/20/1983 | 5-11 | 170 | B | R | MLB | 2007-2007 | Academia de Providencia (Rio Piedras,PR) |
| | 4 | 107 | Angel Garcia | | P | 17 | 10/28/1983 | 6-6 | 200 | R | R | AA | | Nicolas Sevilla High School (Toa Alta,PR) |
| | 5 | 137 | Jeremy Brown | | P | 22 | 1/3/1979 | 6-3 | 210 | R | R | Rookie | | University of Georgia |
| | 6 | 167 | Vince Serafini | | P | 21 | 3/4/1980 | 6-1 | 230 | R | L | A | | University of Evansville |
| | 7 | 197 | Matt Vorwald | | P | 21 | 11/29/1979 | 6-2 | 186 | B | R | A+ | | University of Illinois |
| | 8 | 227 | Jared Hemus | | P | 20 | 1/1/1981 | 5-11 | 168 | L | L | A | | Grossmont College |
| | 9 | 257 | Dusty Gomon | | 1B | 18 | 9/3/1982 | 6-3 | 190 | R | R | A+ | | Terry Parker High School (Jacksonville,FL) |
| | 10 | 287 | Garrett Guzman | | OF | 18 | 2/7/1983 | 5-10 | 170 | L | L | AA | | Green Valley High School (Henderson,NV) |
| | 11 | 317 | Josh Renick | | 2B | 22 | 12/28/1978 | 5-9 | 180 | R | R | AA | | Middle Tennessee State University |
| | 12 | 347 | Kaulana Kuhaulua | | IF | 21 | 1/30/1980 | 6-0 | 166 | R | R | AA | | Long Beach State University |
| | 13 | 377 | Kevin Cameron | | P | 21 | 12/15/1979 | 6-1 | 181 | R | R | MLB | 2007-2007 | Georgia Tech |
| | 14 | 407** | Ryan Anderson | | P | 18 | 9/5/1982 | 6-1 | 180 | L | L | - | | Gaither High School (Tampa,FL) |
| | 15 | 437 | Brett Lawson | | P | 22 | 2/21/1979 | 6-7 | 230 | R | R | Ind | | Northwestern Oklahoma State University |
| | 16 | 467** | Brian Stitt | | P | 18 | 8/26/1982 | 6-0 | 180 | R | R | AAA | | Wellington High School (Wellington,FL) |
| | 17 | 497** | Matt Macri | | SS | 19 | 5/29/1982 | 6-2 | 200 | R | R | AAA | | Dowling High School (West Des Moines,IA) |
| | 18 | 527 | Robert Guzman | | OF | 21 | 1/22/1980 | 5-11 | 200 | L | L | A | | California State University, Fullerton |
| | 19 | 557 | Scott Whitrock | | OF | 20 | 12/18/1980 | 6-0 | 180 | R | R | AA | | Madison Area Technical College |
| | 20 | 587 | Anthony Albano | | OF | 18 | 3/2/1983 | 6-4 | 200 | L | R | Ind | | Brother Rice High School (Chicago,IL) |
| | 21 | 617 | Felix Molina | | 2B | 18 | 5/5/1983 | 5-7 | 160 | B | R | AA | | Eugenio Maria De Hostos (Mayaguez,PR) |
| | 22 | 647 | Ryan Smith | | C | 20 | 10/21/1980 | 6-1 | 210 | B | R | A | | Citrus Junior College |
| | 23 | 677 | Jake Mauer | | 2B | 22 | 12/20/1978 | 6-2 | 180 | R | R | AA | | Saint Thomas High School (Mendota Heights,MN) |
| | 24 | 707 | Bryan Kennedy | | C | 22 | 10/4/1978 | 6-2 | 208 | L | R | AAA | | University of California-Riverside |
| | 25 | 737 | Josh Johnson | | P | 18 | 11/3/1982 | 5-10 | 180 | R | R | AAA | | Ridgway High School (Ridgway,PA) |
| | 26 | 767** | John Herrera | | | 18 | 3/8/1983 | 6-6 | 195 | R | R | A+ | | Redlands High School (Redlands,CA) |
| | 27 | 797 | Justin Elliott | | OF | 19 | 4/27/1982 | 5-11 | 180 | R | R | AAA | | Lake Gibson High School (Lakeland,FL) |
| | 28 | 827 | Brian Gates | | P | 21 | 9/25/1979 | 6-0 | 195 | R | R | A | | University of Tennessee |
| | 29 | 857 | Nick Blackburn | | P | 19 | 2/24/1982 | 6-4 | 230 | R | R | MLB | 2007-2007 | Seminole State College |
| | 30 | 887 | Josh Daws | | P | 22 | 12/8/1978 | 5-10 | 192 | R | R | A+ | | Jacksonville University |
| | 31 | 917** | Ben Thomas | | 3B | 19 | 6/30/1982 | 6-0 | 190 | L | R | A+ | | Rapid City Central High School (Rapid City,SD) |
| | 32 | 947 | Jason Wilmes | | P | 18 | 4/19/1983 | 6-6 | 215 | L | L | - | | Somerset High School (Somerset,WI) |
| | 33 | 977 | Ryan Gehring | | P | 19 | 5/17/1982 | 6-4 | 205 | L | L | Ind | | Burlington Catholic Center High School (Burlington,WI) |
| | 34 | 1007 | Marshall Hendon | | | | | | | | | College | | Christian Brothers High School (Sacramento,CA) |
| | 35 | 1037** | Bookie Gates | | 2B | 21 | 1/31/1980 | 6-2 | 200 | R | R | A- | | Washington State University |
| | 36 | 1067 | Kenny Huff | | 1B | 21 | 9/17/1979 | 5-11 | 211 | L | L | A | - | University of Arizona |
| | 37 | 1097 | Shawn Tarkington | | P | 21 | 8/21/1979 | 6-4 | 230 | R | R | Rookie | | Seton Hall University |
| | 38 | 1127 | Matt Abram | | OF | 21 | 6/13/1980 | 6-0 | 174 | R | R | A+ | | University of Arizona |
| | 39 | 1157 | Nick Niedbalski | | P | 20 | 11/3/1980 | 6-2 | 190 | R | L | Ind | | East Central Community College |
| | 40 | 1187 | Erik Lohse | | P | 21 | 6/5/1980 | 6-0 | 190 | R | R | AA | | Sacramento City College |
| | 41 | 1216 | Ryan Spataro | | OF | 18 | 9/1/1982 | 5-10 | 180 | L | R | A | | St. Peter's Secondary School High School (Barrie,ON) |
| | 42 | 1245 | Patrick Tingley | | P | 20 | 7/5/1980 | 6-2 | 210 | L | L | Ind | | Indiana State University |
| | 43 | 1273** | Jason Vargas | | | 18 | 2/2/1983 | 6-0 | 215 | L | L | MLB | 2005-2007 | |
| | 44 | 1301 | Ryan Hader | | P | 18 | 3/3/1983 | 6-4 | 240 | R | L | Ind | | Belton High School (Belton,MO) |
| | 45 | 1329 | Joshua Smith | | RF | | | | 0 | | | - | | Canyon Springs High School (Moreno Valley,CA) |
| | 46 | 1357 | Mitch Pruemer | | | | | | | | | College | | Rend Lake (Dieterich,IL) |
| | 47 | 1385 | Daniel Smith | | RF | | | | 0 | | | - | | Eau Gallie High School (Melbourne,FL) |
| | 48 | 1412 | William Guzman | | SS | 17 | 1/23/1984 | | 0 | R | R | - | | Northwest Christian High School (Juana Diaz,PR) |
| | 49 | 1438 | Jason Paul | | | | | | | | | College | | Ball State University |
| | 50 | 1463 | Robert Strickland | | 2B | | | | 0 | | | - | | Frostproof High School (Frostproof,FL) |
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