synphul :
Win10 has given several people troubles of varying degree. It could be new processes that didn't exist in win8.1 (like cortana assistant), background updates, indexing of the hard drive. It's doubtful that the motherboard itself is causing the issues. More likely that it's software and if something is accessing your hard drive quite a bit (such as indexing) it can definitely make the entire system feel sluggish.
Was the sluggishness noticeable on windows 8.1 also? Or just since upgrading to win10? I'm assuming you were on win8.1 before the motherboard upgrade, then when installing the new motherboard and reinstalling 8.1 you loaded 8.1 and went right on to upgrading to win10. Task manager should show all the processes using the cpu and they should total the amount used. So if as you say one is using 3%, another 2% and 5% and the rest are fractional, I'd assume cpu usage at that moment would be around 15% usage (10% by the main processes and factoring the additional up to be a bit extra). It wouldn't mesh if this were the case and cpu usage was 40-50%. Maybe try clicking on the details tab under task manager then clicking the header that says 'cpu' to sort them by highest to least usage.
This was for win8 though hopefully will also apply to win10 in terms of disabling superfetch/prefetch.
http://www.tekrevue.com/tip/disable-superfetch-prefetch-windows-8/
Okay, I disabled superfetch/prefetch.
Now my main problem seems to be that my GPU is not kicking in and doing anything for me.
When I start up a game and try to play, I can't top more than 10 FPS and the GPU usage/temp levels don't move AT ALL while im in the game.
I'm not sure if you can help me with this problem, but i think it might be affecting this situation.
ALSO(I forgot to answer this)
No, nothing was sluggish when I was using 8.1. Everything worked great.
and to clarify
I had 8.1 on the old board, upgraded to W10
Installed new board, W10 said it was no longer activated
Contact Microsoft, they say I need to clean install W8.1 again, then reupgrade to W10 to fix my problem.
I do all of this, and now I am here. Slow performance, CPU going crazy, GPU not wanting to do anything...
This whole situation is a nightmare that I have been working on for almost a week now.