Yeah, use replace, not add.
'Add' adds them in at the end of the file, which is probably why you're not seeing them. Adding will only work properly if you remove the old file version first.
So, remove all the files, as in the ones you put in, and the ones still in with the same name as the ones you're putting in, and then add the modified ones in.
Backup before you screw with any files, though.