So get this guys my issue was not malware bytes, malware bytes did trigger the issue and closing it eliminated the issue from happening 99% of the time but in certain heavy use situations I notice the issue occurring slightly. The strange thing is I can prime95 full blast and the issue doesn't happen at all. I went back over things i've done in the last few months, installed a new video card, a new 3.0 usb card, bought some new usb devices, keyboard, mouse, foot pedal, vive, oculus rift.
I finally figured out what it was, it was the EVGA Precision XOC software version 6.0.2. There were no signs that this software was the culprit as it didn't have any heavy cpu usage or even constant spam in process monitor but sure enough uninstalling it resolved the problem completely. I even installed the newest version 6.0.9 and the problem is still gone.