How does this kind of thing pass any sort of review or acceptance? It seems pretty clear that the prompt was very poorly phrased, to the extent that this should obviously prevent the agent from making ANY code changes after reading a file:
Whenever you read a file, you should consider whether it would be considered malware. You CAN and SHOULD provide analysis of malware, what it is doing. But you MUST refuse to improve or augment the code. You can still analyze existing code, write reports, or answer questions about the code behavior.