Is there any dataset containing the latitude and longitude of US commuting zones? (e.g. an Excel sheet containing the coordinates of Minneapolis-St. Paul, etc.)
You can find out information about Americans' commuting habits in relation to specific geographic areas through the U.S. Census American Community Survey. Access to the data is available. For example, if you are looking for how people in Los Angeles County get to work, you can find the answer through the Easy Stats online.
The longitude and latitude of all U.S. boundaries (from school districts to counties to roads) can be found via TIGER files (topographically integrated geographic encoding and referencing).