Thanks Ergophobe, unfortunately is not as simple as that a cpanel move as I am splitting the sites up. WP export also doesn't do the job as some of these are complex woocommerce. A cloner or as you say file move is the way but I would prefer to use a cloner if possible as I would hope that it would deal with folder permissions etc as well, rather than me having to mess with it all. I am looking for something that is the least manual as possible.
Also as they have been sitting on these servers for years I would like a clean move of each site, a fresh start of sorts.
There are loads of plugins that exist, I have used xcloner in the past and I believe backup buddy is quite good. However, if anyone has experience of either and others is would be great to get feedback on them.