Windshield install advice.

Yes Tony, unfortunately either they didnt know what they were doing or were lazy.
Properly done those clips are installed with windshield out. Clips need to be flush
Make sure your glass guy is familiar with old Mopars and their windshield gaskets.
If you replace the gasket, best on the market as far as I know is Precision Replacement Parts.68/9 barracuda windshield stainless clips