For what it's worth, I once had a printout on landing stating that we had just made a severe hard landing. We looked at each other in amusement because as far as greasers go, we just made one of the better ones! Called up maintenance control who just shrugged it away stating 'it happens sometimes, probably a glitch in the system just as you touched down'. They would of course follow it up with other flight data, which I am sure showed that we made a very safe and ordinary landing, because I never heard anything of it again.
So yes, it does happen that the systems flag an event which you know never happened. Hopefully other objective data will back you up if you work for an outfit who will not give you the benefit of doubt.