I have an SBS2011 Server and I have been getting the error NtFrs Error 13559 in the File Replication Service event logs…
The File Replication Service has detected that the replica root path has changed from "c:\windows\sysvol\domain"
. If this is an intentional move then a file with the name NTFRS_CMD_FILE_MOVE_ROOT needs to be created under the new root path.
This was detected for the following replica set:
"DOMAIN SYSTEM VOLUME (SYSVOL SHARE)"
Changing the replica root path is a two step process which is triggered by the creation of the NTFRS_CMD_FILE_MOVE_ROOT file.
 At the first poll which will occur in 5 minutes this computer will be deleted from the replica set.
 At the poll following the deletion this computer will be re-added to the replica set with the new root path. This re-addition will trigger a full tree sync for the replica set. At the end of the sync all the files will be at the new location. The files may or may not be deleted from the old location depending on whether they are needed or not.
The fix is stated in the error log but I have been doing some more reading and this post in EE
Seems to state in two different answers creating the file in “c:\windows\sysvol\NTFRS_C
VE_ROOT “ and in "c:\windows\sysvol\domain\
My question is in which directory do I actually create the file?
I hope someone can clarify this for me.