I reformatted system drive aka disk C:\, and installed Windows 10 Anniversary Update from the official ISO.
Then I installed all updates and restarted OS. The full OS version number is 14393.447.
I paid attention that if I change the System Advanced Performance Options (Control Panel → System → System Protection → Advanced → Performance → Settings… → Visual Effects) the custom settings are preserved only until I perform log out from the user account. Once I make log out and then log in my custom settings are ignored and reset. If I don't make log out or don't switch the user, everything is OK. For instance, if I disable animations and than switch the user, then return to my user account, all animations will be re-enabled although I already have disabled them.
Please, fix the issue and keep the System Advanced Performance Options working even after OS restart of exiting from the user account and then returning back.
P.S. I already tried all proposed below solutions/workarounds but nothing helped.