You are right in the fact that the cat is monitored over a drive cycle and not a "Snap shot".
As far as I know the Toyota re flash was a alteration of the "Decel" monitoring parameters only and not any of the other phases.
As the post lambda is switching across its full operating range at idle I can't see how a re flash of the overrun parameters is going to help.
having said that I am quite happy to be proved different.
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