These overlaps wouldn't happen if the archives were properly indexed!!
What do You mean?
That the name of the FD Archive folder isn't stating clearly enought that it's content is what it is?
If so, then I generally agree ("Misc Drawings/FD Scale 2/..." isn't the most obvious direction).
Or maybe You mean that particular files with drawings there are not having names good enough?
If so, I have no idea what could be more "proper" with:
"Hawker Hunter F.5.png"
http://www.shipbucket.com/images.php?di ... %20F.5.png