Do you enable the PWMSS-0 bit in the tbclken register? AFAIR the PRU cannot 
write to PWMSS-0 SS when the tbclk isn't enabled. See

https://groups.google.com/d/msg/beagleboard/eVgyVduT288/bSJXkkvsBwAJ

For libpruio I added a loadable kernel module to fix this issue.

Regards

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