I repeat that the system is working perfectly, I do not need to repair anything. It would not do anything, but would only cause you to lose valuable time to restore everything.
Sam came across the perfect solution to my problem and without having to repair the System (as your suggested a wrong solution)!
If the disk (non-system, only additional) is broken, it will cause the system not to start in safe mode. Disconnecting the faulty drive will make everything work perfectly. So why repair the system? Hmmm?