What are some innovative publishing layouts to depict a scientific debate?
Some of my work involves development of international standards, on which it can be quite valuable to record the debate leading to a decision.  

Originally this was done in a very ad hoc fashion, via mailing list archives and notes from meetings, then attempting to write "rationale" into the standard.  We are now trying to be more intentional about recording significant debate by using a bug-tracking system on Github.  The jury is still out as to whether this will really work or not, but it seems to be an improvement over not having any system in place.