Graduate programs with Mesoamerican studies as a prominent focus:
Arizona State University, School of Human Evolution and Social Change -- http://shesc.asu.edu/
Boston University, Department of Archaeology -- http://www.bu.edu/archaeology/
Brown University, Department of Anthropology -- http://www.brown.edu/Departments/Anthropology/
Harvard University, Department of Anthropology -- http://www.fas.harvard.edu/~anthro/
Leiden University (Netherlands), Department of Archaeology -- http://www.archaeology.leiden.edu/
Northwestern University, Department of Anthropology -- http://www.anthropology.northwestern.edu/
Pennsylvania State University, Department of Anthropology -- http://www.anthro.psu.edu/
State University of New York at Albany, Department of Anthropology -- http://www.albany.edu/anthro/index.html
Trent University, Department of Anthropology -- http://www.trentu.ca/anthropology/
Tulane University, Department of Anthropology -- http://anthropology.tulane.edu/
University of Arizona, Department of Anthropology -- http://anthropology.arizona.edu/
University of British Columbia, Department of Anthropology -- http://www.anth.ubc.ca/
University of Calgary, Department of Archaeology -- http://arky.ucalgary.ca/
University of California at Berkeley, Department of Anthropology -- http://anthropology.berkeley.edu/
University of Californa at Los Angeles, Cotsen Institute of Archaeology -- http://www.ioa.ucla.edu/
University of California at Riverside, Department of Anthropology -- http://www.anthropology.ucr.edu/
University of Central Florida, Department of Anthropology -- http://anthropology.cos.ucf.edu/content/index.html
University of Colorado at Boulder, Department of Anthropology -- http://www.colorado.edu/Anthropology/
University of Indiana, Department of Anthropology -- http://www.indiana.edu/~anthro/
University of Kentucky, Department of Anthropology -- www.as.uky.edu/anthropology/
University of Pittsburgh, Department of Anthropology -- http://www.anthropology.pitt.edu/
University of Texas at Austin, Department of Anthropology -- http://www.utexas.edu/cola/depts/anthropology/
University of Texas at Austin, Department of Art and Art History -- http://www.finearts.utexas.edu/aah/art_history/
University of Texas at San Antonio, Department of Anthropology -- http://colfa.utsa.edu/ant/
Vanderbilt University, Department of Anthropology -- http://www.vanderbilt.edu/anthro/
For a searchable list of all available graduate programs in Archaeology and/or Anthropology, see the directory at GradSchools.com --
http://www.gradschools.com/programs/humanities-cultures
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