Hi David,
about warnings for the fuses, can you provide more information? What fuse value shows a warning? What value is there after fix and what read value is there when the warning is displayed again? In User Guide, the validation and problem resolution is described in chapter "5.2.3.10 Validation and problem resolution" (tool v6), and this might help you too.
The shadow registers are designed to test the fuse values and the processor should behave same as if the fuses are burnt. If you follow the workflow in chapter 6.5.3.2, the image should be validated during booting. You can try to write different image into the flash (signed with different keys) and check, whether it boots or not.
Of course, if you do hard reset or power down your board, the shadow registers are cleared.
Hope this helps
Regards,
Marek
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