hi bb,
i just checked on fsip and in their support section under the warranty tab you can see what thier warranty is.
Says 1year and they will pay for transportation (i assume they mean shipping)
but there MAY be a 25% restocking fee in cases requesting full credit and no fault was found. Also shipping charges may be charged back to the customer if no fault found.

As for what features are enabled or not on a card purchased?
they have no way of knowing unless you can advise them when they do the repair on the card or when you order it, but i doubt they will program it for you (i could be wrong though)
they are there to repair them and make sure all functions the card is capable of doing works, that's all they do. The setup is up to the dealer or tech responsible for installation.
In most cases in the service manuals there is what they call a 'rapid tuneup' procedure with basic settings for the model lift the manual is for. At least that has been my experience in the past with these cards.
As far as warranty for OEM v/s reman from the OEM supplier?
I'm pretty sure its 1yr. I have seen some reman parts have only a 6mos warranty though. I guess it all depends on the supplier and what the part is.