| 2 | 66 | June-Reg | Trevor Cahill | P | 18 | 6-3 | 195 | R | R | MLB | 2009-2009 | Vista (Vista,CA) | $560,000 |
| 3 | 98 | June-Reg | Matthew Sulentic | OF | 18 | 5-10 | 170 | L | R | AA | | Hillcrest (Dallas,TX) | $395,000 |
| 4 | 128 | June-Reg | Chad Lee | P | 20 | 6-4 | 200 | R | R | A | | Barton County Community College | $245,000 |
| 5 | 158 | June-Reg | Jermaine Mitchell | CF | 21 | 6-0 | 200 | L | L | A+ | | University of North Carolina-Greensboro | $155,000 |
| 6 | 188 | June-Reg | Andrew Bailey | P | 22 | 6-3 | 220 | R | R | MLB | 2009-2009 | Wagner College | $135,000 |
| 7 | 218** | June-Reg | Mike Leake | P | 18 | 5-11 | 160 | R | R | College | | Fallbrook (Fallbrook,CA) | $0 |
| 8 | 248 | June-Reg | Angel Sierra | CF | 17 | 6-0 | 172 | B | R | A- | | Puerto Rico Baseball Academy (Gurabo,PR) | $75,000 |
| 9 | 278** | June-Reg | Danny Hamblin | 1B | 21 | 6-1 | 210 | R | R | A | | University of Arkansas | |
| 10 | 308 | June-Reg | Christian Vitters | SS | 21 | 6-3 | 200 | L | R | A+ | | Fresno State University | $55,000 |
| 11 | 338 | June-Reg | Jason Fernandez | P | 21 | 6-2 | 180 | R | R | AAA | | University of Louisiana at Lafayette | |
| 12 | 368 | June-Reg | Shane Presutti | P | 21 | 6-3 | 187 | R | R | A | | Franklin Pierce University | |
| 13 | 398 | June-Reg | Ben Jukich | P | 23 | 6-4 | 190 | L | L | AAA | | Dakota Wesleyan University | |
| 14 | 428 | June-Reg | Toddric Johnson | CF | 21 | 6-1 | 195 | L | L | A+ | | University of Southern Mississippi | |
| 15 | 458 | June-Reg | Kyle Christensen | P | 17 | 6-3 | 225 | R | R | A- | | Millikan (Long Beach,CA) | |
| 16 | 488 | June-Reg | Brandon Dewing | P | 22 | 6-0 | 165 | L | L | A+ | | San Jose State University | |
| 17 | 518 | June-Reg | Mike Affronti | SS | 22 | 6-1 | 190 | R | R | AAA | | Le Moyne College | |
| 18 | 548 | June-Reg | Mike Ambort | C | 21 | 6-1 | 215 | B | R | A+ | | Lamar University | |
| 19 | 578 | June-Reg | Greg Dowling | 1B | 22 | 6-3 | 240 | L | L | A+ | | Georgia Southern University | |
| 20 | 608 | June-Reg | Josh Mclaughlin | P | 22 | 5-11 | 190 | R | R | College | | College of Charleston | |
| 21 | 638 | June-Reg | Jake Smith | C | 23 | 6-2 | 217 | R | R | A | | East Carolina University | |
| 22 | 668 | June-Reg | Patrick Currin | P | 22 | 6-0 | 190 | R | R | AA | | University of North Carolina-Greensboro | |
| 23 | 698 | June-Reg | Scott Moore | P | 22 | 6-2 | 245 | R | R | AA | | Texas State University | |
| 24 | 728 | June-Reg | Earl Oakes | P | 20 | 6-3 | 225 | R | R | A+ | | Pace University | |
| 25 | 758 | June-Reg | Aaron Odom | P | 21 | 6-0 | 165 | L | L | A | | Texas Tech University | |
| 26 | 788 | June-Reg | Derrick Gordon | P | 22 | 5-10 | 190 | B | L | AAA | | Lamar University | |
| 27 | 818 | June-Reg | Larry Cobb | OF | 20 | 5-10 | 175 | R | R | AAA | | College of Charleston | |
| 28 | 848 | June-Reg | Lorenzo Macias | OF | 20 | 6-2 | 190 | R | R | A- | | Mount San Antonio College | |
| 29 | 878 | June-Reg | Matt Manship | P | 22 | 6-4 | 205 | R | R | A- | | Stanford University | |
| 30 | 908 | June-Reg | Joshua Morgan | P | 21 | 6-2 | 200 | R | R | - | | University of Missouri-St. Louis | |
| 31 | 938 | June-Reg | Jonathan Pigott | RF | 18 | 6-2 | 181 | R | R | College | | Seabreeze (Daytona Beach,FL) | |
| 32 | 968 | June-Reg | Nicholas Hernandez | P | 17 | 6-3 | 172 | L | L | A- | | Hialeah (Hialeah,FL) | |
| 33 | 998 | June-Reg | Burke Lieppman | 1B | 18 | 6-5 | 215 | R | R | - | | Prescott (Prescott,AZ) | |
| 34 | 1028 | June-Reg | Stephen Cochrane | C | 17 | 6-0 | 180 | S | R | - | | Mission Viejo (Mission Viejo,CA) | |
| 35 | 1058 | June-Reg | Carlos Hernandez | P | 19 | 5-11 | 165 | L | L | AAA | | West Valley College | |
| 36 | 1088 | June-Reg | Jean Diaz | 3B | 17 | 5-11 | 195 | R | R | College | | Perpetuo Socorro (San Juan,PR) | |
| 37 | 1118 | June-Reg | David Fry | CF | 18 | 6-0 | 180 | R | L | - | | Bishop Gorman (Las Vegas,NV) | |
| 38 | 1148 | June-Reg | Rylan Sandoval | IF | 18 | 5-10 | 185 | R | R | College | | Chabot College | |
| 39 | 1178 | June-Reg | Dante Love | C | 19 | 5-11 | 195 | R | R | A+ | | San Diego City College | |
| 40 | 1208 | June-Reg | Goldy Simmons | P | 17 | 6-4 | 210 | R | R | Rookie | | Monte Vista (Spring Valley,CA) | |
| 41 | 1238 | June-Reg | Jeremy Weih | C | 18 | 5-11 | 0 | R | R | College | | Wilton (Wilton,IA) | |
