Using the last post from 19Braves77 I could find

International League (AAA)
Buffalo Bisons - New York (NL) (signed through 2012)
Columbus - Extended to 2016
Indianapolis Indians - Pittsburgh (signed through 2012)
Lehigh Valley IronPigs - Philadelphia (signed through 2012) Extended to 2016
Pawtucket Red Sox - Boston (signed through 2012)
Rochester Red Wings - Minnesota (signed through 2012) Extended 2014

Pacific Coast League (AAA)

Albuquerque Isotopes - Los Angeles (signed through 2012) Extended to 2014
Fresno Grizzlies - San Francisco (signed through 2012) Extended to 2014
Iowa Cubs - Chicago (NL) (signed through 2012)
Las Vegas 51s - Toronto (signed through 2012)
Memphis Redbirds - St. Louis (signed through 2012)
Nashville Sounds - Milwaukee (signed through 2012)
New Orleans Zephyrs - Miami (signed through 2012)
Oklahoma RedHawks - Houston (signed through 2012)
Reno Aces - Arizona (signed through 2012) Extended to 2016

Eastern League (AA)

Akron Aeros - Cleveland (signed through 2012)
Binghamton Mets - New York (NL) (signed through 2012) Extended to 2016
New Britain Rock Cats - Minnesota (signed through 2012) Extended to 2014
Richmond Flying Squirrels - San Francisco (signed through 2012) Extended to 2014


Southern League (AA)

Huntsville Stars - Milwaukee (signed through 2012)
Jackson Generals - Seattle (signed through 2012)
Jacksonville Suns - Miami (signed through 2012)
Pensacola Blue Wahoos - Cincinnati (signed through 2012) Extended to 2016

Texas League (AA)

Arkansas Travelers - Anaheim (signed through 2012)

California League (A - Advanced)

Bakersfield Blaze - Cincinnati (signed through 2012)
High Desert Mavericks - Seattle (signed through 2012)
Lake Elsinore Storm - San Diego (signed through 2012) Extended to 2014
Lancaster JetHawks - Houston (signed through 2012)
Modesto Nuts - Colorado (signed through 2012)
Rancho Cucamonga Quakes - Los Angeles (signed through 2012) Extended to 2014
San Bernardino Inland Empire 66ers - Anaheim (signed through 2012)


Carolina League (A - Advanced)

Wilmington Blue Rocks - Kansas City (signed through 2012) Extended to 2014


Florida State League (A - Advanced)

Brevard County Manatees - Milwaukee (signed through 2012) Extended to 2014
Charlotte Stone Crabs - Tampa Bay (signed through 2012)
Daytona Cubs - Chicago (NL) (signed through 2012)
Fort Myers Miracle - Minnesota (signed through 2012)


Midwest League (A)

Beloit Snappers - Minnesota (signed through 2012)
Bowling Green Hot Rods - Tampa Bay (signed through 2012) Extended to 2014
Burlington Bees - Oakland (signed through 2012)
Cedar Rapids Kernels - Anaheim (signed through 2012)
Clinton Lumber Kings - Seattle (signed through 2012)
Dayton Dragons - Cincinnati (signed through 2012)
Fort Wayne TinCaps - San Diego (signed through 2012)
Kane County Cougars - Kansas City (signed through 2012)
Lansing Lugnuts - Toronto (signed through 2012) Extended to 2014
Peoria Chiefs - Chicago (NL) (signed through 2012)
Quad Cities River Bandits - St. Louis (signed through 2012)
South Bend Silver Hawks - Arizona (signed through 2012)


South Atlantic League (A)

Asheville Tourists - Colorado (signed through 2012) Extended to 2016
Augusta GreenJackets - San Francisco (signed through 2012) Extended to 2014
Greensboro Grasshoppers - Miami (signed through 2012)
Hagerstown Suns - Washington (signed through 2012)
Hickory Crawdads - Texas (signed through 2012) Extended to 2014
Lakewood Blue Claws - Philadelphia (signed through 2012) Extended to 2014
Lexington Legends - Houston (signed through 2012)


NY-Penn League (A - Short Season)

Aberdeen IronBirds - Baltimore (signed through 2012)
Batavia Muckdogs - St. Louis (signed through 2012)
Hudson Valley Renegades - Tampa Bay (signed through 2012) Extended to 2014
Jamestown Jammers - Miami (signed through 2012)
State College Spikes - Pittsburgh (signed through 2012)
Tri-City ValleyCats - Houston (signed through 2012) Extended to 2014
Vermont Lake Monsters - Oakland (signed through 2012)
Williamsport Crosscutters - Philadelphia (signed through 2012) Extended to 2014


Northwest League (A - Short Season)

Boise Hawks - Chicago (NL) (signed through 2012)
Eugene Emeralds - San Diego (signed through 2012)
Everett AquaSox - Seattle (signed through 2012) Extended to 2014
Salem-Keizer Volcanoes - San Francisco (signed through 2012)
Spokane Indians - Texas (signed through 2012) Extended to 2014
Tri-City Dust Devils - Colorado (signed through 2012)
Yakima Bears - Arizona (signed through 2012)


Appalachian League (Rookie - Short Season)

Burlington Royals - Kansas City (signed through 2012) Extended to 2014
Pulaski Mariners - Seattle (signed through 2012, possible extension to 2014)


Pioneer League (Rookie - Short Season)

Idaho Falls Chukars - Kansas City (signed through 2012) Extended to 2014