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Spencer Ackerman asked the same question:
What? What civil liberties organization actually encouraged the administration to set up a system of “prolonged detention” — the less euphemistic term would be indefinite detention — in the first place; let alone urged the administration to do it without congressional approval?
Update: Zach Roth at TPM reports that the Center for Constitutional Rights certainly doesn’t approve of the idea.
http://washingtonindependent.com/48971/uh-which-civil-liberties-groups-want-a-prolonged-detention-executive-order
I can't think of one civil liberties group I'm familiar with that would approve of an executive order for that purpose, including the ACLU.