Customizer does not save upon exit

I migrated a site from multisite install to single site.
The customizer applies changes, but when i come out of customizer, the changes are not seen. Please see the below videos.
Non-working site video:
Working site video:
There are absolutely no JS errors in console neither there is any error if i enable the debug=true in wp-config.php
So please tell me how to fix customizer to get it save the options.
Thanks and Regards
Ravi Kumar

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