| 1 | 2 | June-Reg | Alex Gordon | 3b | 21 | 6-1 | 220 | L | R | MLB | 2007-2009 | University of Nebraska | $4,000,000 |
| 2 | 50 | June-Reg | Jeff Bianchi | ss | 18 | 6-0 | 175 | R | R | AA | | Lampeter Strasburg (Lampeter,PA) | $690,000 |
| 3 | 82 | June-Reg | Chris Nicoll | P | 21 | 6-1 | 190 | R | R | AAA | | University of California-Irvine | $445,000 |
| 4 | 112 | June-Reg | Joe Dickerson | of | 18 | 6-1 | 190 | L | L | AA | | Esperanza (Anaheim,CA) | $250,000 |
| 5 | 142 | June-Reg | Shawn Hayes | ss | 20 | 6-4 | 220 | L | R | A | | Franklin Pierce University | $175,000 |
| 6 | 172 | June-Reg | Ryan Dipietro | P | 20 | 6-0 | 175 | L | L | A | | Eastern Connecticut State University | $130,000 |
| 7 | 202 | June-Reg | Brent Fisher | P | 17 | 6-2 | 185 | L | L | A | | Tolleson Union (Tolleson,AZ) | $130,000 |
| 8 | 232 | June-Reg | Nicholas Doscher | C | 18 | 6-2 | 205 | R | R | A | | Moore Catholic (Staten Island,NY) | $100,000 |
| 9 | 262 | June-Reg | Kiel Thibault | c | 21 | 6-0 | 195 | R | R | AA | | Gonzaga University | $75,000 |
| 10 | 292 | June-Reg | Jeff Howell | C | 22 | 6-0 | 200 | R | R | AA | | Florida Southern College | $5,000 |
| 11 | 322 | June-Reg | Michael Penn | P | 23 | 6-4 | 205 | R | R | A+ | | University of Michigan | |
| 12 | 352 | June-Reg | Cody Harkcom | P | 21 | 6-1 | 180 | R | R | A | | New Mexico Junior College | |
| 13 | 382 | June-Reg | Andrew Larsen | of | 22 | 6-0 | 200 | R | R | A+ | | Stony Brook University | |
| 14 | 412 | June-Reg | Anton Sabatini | CF | 22 | 6-0 | 195 | R | L | A | | Erskine College | |
| 15 | 442 | June-Reg | Brady Everett | C | 21 | 6-0 | 205 | R | R | A+ | | Washington State University | |
| 16 | 472 | June-Reg | Mario Santiago | P | 20 | 6-2 | 210 | R | R | A+ | | Baton Rouge Community College | |
| 17 | 502 | June-Reg | Miguel Vasquez | SS | 18 | 6-1 | 190 | R | R | Rookie | | DeWitt Clinton (Bronx,NY) | |
| 18 | 532 | June-Reg | Paul Raglione | P | 18 | 6-5 | 195 | R | R | A | | Grant (Portland,OR) | |
| 19 | 562 | June-Reg | Zane Chavez | c | 18 | 5-11 | 205 | L | R | College | | Fallbrook (Fallbrook,CA) | |
| 20 | 592 | June-Reg | Bryan Casey | P | 19 | 6-1 | 200 | R | R | A | | Arizona Western College | $235,000 |
| 21 | 622 | June-Reg | David Henninger | P | 21 | 6-8 | 212 | R | R | A | | Messiah College | |
| 22 | 652 | June-Reg | Justin Bristow | ss | 18 | 6-4 | 200 | R | R | A | | Mills Godwin (Richmond,VA) | |
| 23 | 682 | June-Reg | Matt Kniginyzky | P | 22 | 6-3 | 185 | L | R | AA | | High Point University | |
| 24 | 712 | June-Reg | Joshua Colafemina | SS | 22 | 5-8 | 150 | R | R | Ind | | College of Saint Rose | |
| 25 | 742 | June-Reg | Kevin Bulger | P | 22 | 6-4 | 195 | R | R | Rookie | | College of Charleston | |
| 26 | 772 | June-Reg | Jake Mclintock | P | 22 | 6-1 | 190 | R | R | Ind | | San Diego State University | |
| 27 | 802 | June-Reg | Jase Turner | 1b | 22 | 6-2 | 225 | L | R | A | | Pomona-Pitzer Colleges | |
| 28 | 832 | June-Reg | Josh Morgan | of | 20 | 6-3 | 210 | R | R | Ind | | Oklahoma Baptist University | |
| 29 | 862 | June-Reg | Brandon Brantley | P | 22 | 6-4 | 225 | R | R | Rookie | | University of Science and Arts of Oklahoma | |
| 30 | 892 | June-Reg | Jeremy Jirschele | 2b | 22 | 5-9 | 195 | R | R | A+ | | University of Wisconsin-Oshkosh | |
| 31 | 922 | June-Reg | Pedro Lopez | ss | 18 | 5-9 | 160 | B | R | A- | | Universidad del Turabo (Toa Baja,PR) | |
| 32 | 952** | June-Reg | Michael Dubee | P | 19 | 6-2 | 177 | R | R | AA | | Northwest Florida State College | |
| 33 | 982 | June-Reg | Danny Gutierrez | P | 18 | 6-2 | 180 | R | R | AA | | Rubidoux (Riverside,CA) | |
| 34 | 1012 | June-Reg | Oscar Marrero | C | 18 | 5-11 | 180 | B | R | Rookie | | Juan Antonio Corretjer (Ciales,PR) | |
| 35 | 1042 | June-Reg | Luke Burnett | P | 18 | 6-8 | 260 | R | R | A- | | Carthage (Carthage,TX) | |
| 36 | 1072** | June-Reg | Matt Klimas | c | 17 | 5-11 | 185 | R | R | A | | Broken Arrow (Broken Arrow,OK) | |
| 37 | 1102 | June-Reg | Nickolas Love | OF | 18 | 6-0 | 180 | R | R | - | | Enterprise (Enterprise,AL) | |
| 38 | 1132 | June-Reg | Jacob Myking | c | 19 | 6-0 | 215 | R | R | - | | San Joaquin Delta College | |
| 39 | 1162 | June-Reg | Steve Teno | P | 17 | 6-0 | 155 | R | L | College | | St. Thomas of Villanova (LaSalle,ON) | |
| 40 | 1191 | June-Reg | Nick Romero | SS | 25 | 5-10 | 150 | R | R | A- | | Eastlake (Chula Vista,CA) | |
| 41 | 1220 | June-Reg | Anthony Rodriguez | ss | 18 | 6-1 | 172 | R | R | - | | Puerto Rico Baseball Academy (Gurabo,PR) | |
| 42 | 1249** | June-Reg | David McClain | P | 18 | 6-3 | 180 | L | R | College | | North Shore (Houston,TX) | |
| 43 | 1278 | June-Reg | Tyler Backus | P | 18 | 6-2 | 175 | R | R | - | | Mingus (Cottonwood,AZ) | |
| 44 | 1307 | June-Reg | Mark Serrano | P | 19 | 6-1 | 195 | R | R | A | | Cypress College | |
| 45 | 1336** | June-Reg | Eric Martinez | P | 18 | 6-2 | 180 | L | R | - | | Eastlake (Chula Vista,CA) | |
| 46 | 1365** | June-Reg | Brian Paukovits | P | 18 | 6-7 | 238 | R | R | Rookie | | El Capitan (Lakeside,CA) | |
| 47 | 1394 | June-Reg | Kip Masuda | c | 17 | 6-0 | 185 | R | R | College | | Mid-Pacific Institute (Honolulu,HI) | |
| 48 | 1422 | June-Reg | Chester Wilson | 1b | 19 | 5-11 | 215 | R | R | College | | St. Louis (Honolulu,HI) | |
| 49 | 1449 | June-Reg | Matt Gibbs | P | 20 | 6-3 | 210 | R | R | - | | Modesto Junior College | |
| 50 | 1476 | June-Reg | Juan Perez | P | 18 | 6-0 | 150 | R | R | - | | Jose Rojas Cortez (Orocovis,PR) | |