I've began making some use of the affiliates functionality and found the following issue:
because the store uses ssl for admin ( if enabled ) , the generated affiliate link reads like so:
httpS://www.yourstore.com/default.aspx?affiliateid=1
This may not be an issue as long as the store is using ssl but if the storeowner chooses not to continue using ssl then all those links out around the net will bring up a security warning page when a user clicks through
the same issue occurs with topics eg
https://www.yourstore.com/topic/13-.aspx
off the top of my head, I can't think of other auto generated urls which may be affected