Have you tried the Delayed Reboot App?
Every time my MFT starts acting up, I use this app, and things clear up for a while at least. I keep the file on a cheap flash drive stored in my owner's manual pouch.
Nice thing about this app is it doesn't wipe your settings. It just forces a "Scheduled System Maintenance".
I haven't had to pull fuses since I bought the car 6 months ago.