Thanks for the replies guys! My unraid is not considered a back up server for me it just holds media like tv shows and movies so it can all be replaced just a pain in the ass. A good point you all make is the permissions which I never thought about and that is something I will make sure to change when I get V6 of unraid.
I made this thread as when I was googling I could not find any thing and though it would be nice for others to know this can happen.
Time to wipe those drives and start again , thanks again everyone!!!