"The paper received a great deal of attention, and was covered by over 80 media outlets including The Economist, the Boston Globe, the Los Angeles Times, and Scientific American." And how many of these will cover the retraction? A dozen at most? And all those articles will be sitting out there, getting cited and read on occasion.
I think there is no need to be concerned that the retraction won't be widely covered in the long run in this particular case though -- all the religious interest groups will make a big fuss about this...
False reporting of any sort (including the failure to correct prior false reports, whether intended or not) always causes harm. Truth and principles matter.
Furthermore, reducing ideas to power struggles between those who speak them is to commit both the genetic fallacy and the ad-hominem fallacy.