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Think you have an error in the clock setting for your SPI. In looking through the code you have the clock set at 4mhz with a setting of 21. The only way to get 21 for a 4mhz clock is if the F_CPU is at 84mhz. This is what the due is set at. If you use the SAM3s1a which is 64mhz the setting should be 16, I believe. For 5.33 it should be around 13.
Respectfully
Mike
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