When i posted a few weeks ago that this was now back to normal i soon realized a few hours later that it was not and everything was as before.
so over the past few weeks after trying all of the above suggestions i tried the only options left.
First one was to use the option to re-install Win 10 with the new built-in feature, it stated that all of my settings would stay in place and gave me a list of about 5 programs that would have to be uninstalled in the process so i thought ok no big deal i can just reinstall them later if need be so i hit the continue button.
The procedure took a little time to complete but eventually up popped my desktop again, but then to my horror up popped a list of programs that had been removed (over 100)
The strange thing is it didnt even bother removing half of the desktop icons they just dont link to anything anymore.
And to top it off the PC was still the same.
DO NOT USE THIS TOOL IT TELLS LIES AND WILL MESS UP YOUR PC
Next I tried swapping out the hard drives, cloned the content and replaced them. (a lot of work
) this did not solve the problem. 
One last option remained, Back up everything including my Steam games (that alone took over 6 hours) and do a completely new install of windows.
I decided to go ahead and when done i waited for the desktop to appear, installed Steam and clicked run and the PC was still SLOW................
By now i was convinced it was a hardware problem as nothing else was left and thought it was time to bite the bullet and buy a new motherboard as i must of damaged it when installing the new water cooler as that was when the problems started.
So i pulled up the online manual for my motherboard to see what to look for in a new one and a few pages down i noticed this.
Needless to say it is now back in the correct position and yhe PC now runs as it did before
I only wish i had known about it weeks ago.
