Same problem here as well. Unfortunately I have over 692 files in one directory that have the error message, so renaming that many files is not an option for me. The strange thing is that I have three other Syncthing servers that are synchronized with the same folder and those three servers are all showing up to date.
Not sure I understand. If all the files within some subdirectory in a folder, then you can rename the subdirectory. If they are at the root of the folder, or scattered, you might want to upgrade to the latest rc which should have this bug fixed.
I am sharing the root folder which is named HBT Service, however, the problem files are in multiple folders which are sub folders inside the HBT Service folder. There are 109,208 files and 15,175 folders inside the HBT Service folder. I am using SyncTrayzor and do not see an option to install the RC versions. I may have to just wait until the 28th when the RC is officially released. These are production machines with 3.7 million files being synchronized, and the root synchronized folders are mapped to about 100 employees. I am afraid to experiment too much.