Ok after doing some reading, the big difference between SDK 2 and 3 is that rather than use their standard functions in the libspe.h to create threads, they give you more flexibility by simply using whatever thread library you want. In Linux I guess most people use pthreads, and then you use their functions to manage your pthreads. It's a little more overhead, but gives more flexibility for you to choose your threading library..
PThread information:
https://computing.llnl.gov/tutorials/pthreads/
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