Can ST Reward Customers for Completing Tasks Related to Applications Outside the Magento System?

YES! Many current store owners use the MageRewards API to extend functionality so that customers can be rewarded for custom actions. I'm not sure if you have seen the API information, but do please check it out: 

Documentation is here:
So you can use the API's maketransfer function to setup your hybrid affiliate program however you would like.

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