it seems that only html files are impacted
go to menu -> Virtual file system -> icons mask
what do you have as items in the list
--> screenshot 
The Folder icons are OK, but the files placed in those folders must be edited it's because you have moved the directory containing these files, all path are brocken
I also notice that a good part of your files are protected by an identifier + password, have you used the right click and the option "set user / pass" or defined a restriction of access since the properties of each file
what you can do is to use the PURGE option of the context menu on the root of the vfs, this will remove the elements which no longer have a direct link, and then to re-import all the html files missing from and then their new location on the disk
However, you will have to redefine access permissions to these files
to add again the files would not replace the existing ones with a bad path, but it would create duplicates with the same name with a numeric value, it's neccesary to remove first bad files.
this may be more work than manually redrawing the path of each file (<50 if I judge by the size of the elevator representing your VFS
