Here's my list, probably lots of mistakes. 2 schools means they attended two colleges, not that they graduated from 2, although several did. I learned lots of interesting things putting this list together.

Air Force: Will Healy (2 schools), Troy Calhoun
Alabama: Dabo Swinney
Appalachian State: Scott Satterfield, Shawn Clark, Shawn Elliott
Arkansas: Gus Malzahn (2 schools), Butch Davis, Kane Wommack (2 schools)
Arkansas Tech: Eliah Drinkwitz
Assumption: Brian Kelly
Ball State: Mike Neu, Brady Hoke
Baylor: Maurice Linguist, Blake Anderson (2 schools)
Boise State: Andy Avalos, Bryan Harsin
Bucknell: Greg Schiano
BYU: Steve Sarkisian, Kalani Sitake, Judas Iscariot Whittingham, Mike Leach (3 schools, BA here)
California: Herm Edwards (2 schools)
California Lutheran: Dave Aranda (2 schools)
Central Arkansas: Mike Norvell
Central Connecticut: Steve Addazio
City College of San Francisco: Nick Rolovich (2 schools)
Clemson: Jeff Scott
Connecticut: Kirk Ferenz
Cornell: Ricky Rahne
Culver-Stockton: Mike Bloomgren (2 schools)
Drake University: David Doeren
Doge City Community College: Gary Patterson (2 schools)
East Central: Todd Graham
East Stroudsburg: James Franklin
East Tennessee State: Jamey Chadwell
Eastern Washington: Jim McElwain, Jimmy Lake
Ferris State: Butch Jones
Florida: Jedd Fisch
Florida State: Manny Diaz, Mack Brown (2 schools), Rick Stockstill, Mike Bloomgren (2 schools)
Fresno State: Lane Kiffin
Furman: Billy Napier
Geneva College: Jason Candle (2 schools)
Georgia: Kirby Smart
Georgia College: Chad Lunsford
Hampden-Sydney: Ryan Silverfield
Hampton: Charles Huff
Hawaii: Ken Niumatololo, Dino Babers, Nick Rolovich (2 schools)
Henderson State: Gus Malzahn (2 schools)
Houston: Tyson Helton
Idaho State: Donte Williams (3 schools)
Indiana: Rod Carey
Iowa: Bret Bielema, Jay Norvell, Mark Stoops
Iowa Wesleyan: Dana Holgorsen
Jacksonville State: Bill Clark
John Carroll University: Tom Arth
Kansas State: Gary Patterson (2 schools), Dana Dimel
Kent State: Nick Saban
Kentucky: Neal Brown (2 schools)
Kenyon College: Chris Creighton
Louisiana State: Ed Orgeron (2 schools)
Louisville: Jeff Brohm
Maranatha Baptist: Tom Allen
Mars Hill: Mike Houston
Miami: Mario Cristobal
Michigan: Jim Harbaugh, Scot Loeffler
Middle Tennessee State: Walt Bell
Milliken: Jeff Monken, Chuck Martin
Missouri State: Jake Spavital
Mount Union: Matt Campbell (2 schools), Jason Candle (2 schools)
Murray State: Justin Fuente (2 schools)
Nebraska: Scott Frost (2 schools), Craig Bohl
New Hampshire: Chip Kelly
New Mexico: Danny Gonzales
North Alabama: Will Hall (2 schools), Chip Lindsey
Northern Illinois: P.J. Fleck, Thomas Hammock
Northern Iowa: Chris Klieman
Northwest Oklahoma State: Tim Albin
Northwest University Community College: Will Hall (2 schools)
Northwestern: Pat Fitzgerald
Northwestern State: Ed Orgeron (2 schools)
Notre Dame: Skip Holtz
Ohio State: Luke Fickell
Oklahoma: Justin Fuente (2 schools), Seth Littrell, Josh Heupel
Oklahoma State: Mike Gundy
Oregon: Justin Wilcox
Oregon State: Bronco Mendenhall (2 schools), Jonathan Smith
Pasadena Community College: Donte Williams (3 schools)
Pepperdine: Mike Leach (3 schools, JD here)
Pittsburgh: Matt Campbell (2 schools)
Pittsburgh State: Willie Fritz, Sam Pittman
Rhode Island: Pat Narduzzi (2 schools)
Richmond: Will Healy (2 schools)
Salem International University: Jimbo Fisher (2 schools)
Sam Houston State: Blake Anderson (2 schools)
Samford University: Jimbo Fisher (2 schools)
San Diego State: Herm Edwards (2 schools)
San Jose State: Marcus Arroyo
Siena: Jeff Hafley
Sioux Falls: Kalen DeBoer
Snow College: Bronco Mendenhall (2 schools)
Southern Miss: Kane Wommack (2 schools)
Stanford: Scott Frost (2 schools), David Shaw
Stephen F. Austin: Jeff Traylor
Southern Mississippi: Hugh Freeze
Syracuse: Donte Williams (3 schools)
Tarleton State: Philip. Montgomery
Texas Tech: Sonny Dykes, Dave Aranda (2 schools), Lincoln Riley
Towson State: Mike Locksley
UCLA: Brent Brennan, Karl Dorrell
UMass: Neal Brown (2 schools)
United States Sports Academy: Mike Leach (3 schools, MS here)
University of Alabama: David Cutcliiffe
University of Kentucky: Doug Martin
University of New Hampshire: Ryan Day
University of Tulsa: Lou Spanos
Ursinius College: Dan Mullen (2 schools)
Utah State: Matt Wells
Vanderbilt: Mack Brown (2 schools), Clark Lea
Virginia Tech: Shane Beamer
Wagner: Dan Mullen (2 schools, MS here)
West Virginia: Terry Bowden
Western California: Geoff Collins
Western Kentucky: Willie Taggart
Western Michigan: Tim Lester
Wisconsin: Mel Tucker, Paul Chryst, Sean Lewis
Wisconsin Whitewater: Lance Leopold
Williams: Dave Claws
Youngstown State: Pat Narduzzi (2 schools)