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The Fit has the advantage in terms of features at the moment but let's see what happens once the xA gets the Yaris makeover. At least that's what I think the Yaris 5-door will be when it comes out.
It's very likely that the Scion xA will likely be replaced by a US-legal version of the Toyota Ractis "tall wagon," including possibly the CVT automatic offered in Japan.
Here's a picture of what the Ractis looks like:
It would certainly appeal to more drivers than the Scion xA, which is based on the Toyota Ist model sold in Japan (which I believe will soon go out of production).