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After nearly four years, still no reply to this post, which appeared on the 1st page of a google search result for "fckeditor migration guide". This might appear trivial for non-customized editors; but for other cases, when there are customizations, it would be very useful to have some abstract, e.g.:
For me this thread is the sixth result, but the 3rd one provides an explanation of the migration to CKEditor 3 and the mapping of configuration settings.
All I could find is the recommendation to start anew, and a link to the matrix of the mappings.