Yes, my suggestion is also to select "Free up Space" on those syncing folders. But then just wait a few seconds and select "Always keep on this device" again. Then if you have a lot of files they won't have to download all over again.
Check the properties on those folders. Are the properties on the problem folders different than the properties on the folders that are syncing correctly?
Share the folders with Administrators, yourself, and Homegroup if that's still an option available.
Also go to the Security tab > Advanced > Permissions and Enable Inheritance.
I'm trying to figure this out but really need an expert on Permissions and Inheritance:
https://www.tenforums.com/tutorials/88305-enable-disable-inherited-permissions-objects-windows.html
On mine I have permission entries with Allow and Full Control and a button that says "Disable Inheritance" which means Inheritance is Enabled for me. It seems to me that you probably want files and folders to inherit permissions from parent folders.
https://www.tenforums.com/tutorials/88436-change-permissions-objects-users-groups-windows-10-a.html
Not sure these suggestions will do anything to help your situation.