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My question is does e-junkie handle subscriptions? I have 2 services that I would like to go through e-junkie on a monthly basis and have affiliates offering them. I didn't read anything about this..if not, can I still have affiliates? Thanks for your help.

Our system has no way of handling recurring payments such as a periodic subscription or installment plan; however, you can use PayPal Recurring Payments with PayPal's own Subscription buttons at the same time as using E-junkie with PayPal, and they won't interfere with each other at all.

If you're using E-junkie purchase buttons to take online orders for your products, you can use our built-in affiliate system:
http://www.e-junkie.com/ej/help.affiliates.htm