I was curious if it’s possible to tell if the MSI file was modified since it was built?
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Possibly not in the manner you are expecting, but if you always sign your MSI files any modifications after they have been signed will invalidate the digital signature.
Signing an MSI is always a good idea, as the UAC prompt for an unsigned MSI is different than for one with a valid digital signature.
For more information refer to MSDN – How to: Sign Setup Files with SignTool.exe (Windows Installer)