(Instructions for setting it up are already on the PrestoSoft site, under "Version Control" in the left sidebar of the ExamDiff Pro page.)
Using that setup, I'm finding that some files work great and some don't open at all. I'm working on some JavaScript files created by Sencha Architect. Sencha creates *.js files from metadata text files it keeps, which have no real extension. Example:
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myproject-client/metadata/view/analytics.ReportMain
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myproject-client/app/view/analytics/ReportMain.js
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git difftool -- myproject-client/app/view/analytics/ReportMain.js
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$ git difftool -- myproject-client/metadata/view/analytics.ReportMainController
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warning: LF will be replaced by CRLF in myproject-client/metadata/view/analytics.ReportMainController.
The file will have its original line endings in your working directory.