Regarding who to trust; both: trust the whole cyber-physical system. And like OP said, the system worked as designed. The bigger system now even learns from thi

Regarding who to trust; both: trust the whole cyber-physical system. And like OP said, the system worked as designed. The bigger system now even learns from this and improves the existing cyber-physical system to handle such cases even better / earlier or avoid them: "Flybe implemented remedial actions quickly in response to the incident and our training and procedures have been amended to minimise the risk of a reoccurrence".