Similar to http://tracker.moodle.org/browse/MDL-18240
When backing up, restoring, or importing, one of the options presented for inclusion is "Blocks." However, Restore does not include Blocks unless "Overwrite course configuration" is set to "Yes," and Import does not seem to transfer Blocks at all. As described in MDL-18240, "Many instructors have customized blocks that are as vital to their course as their activities and resources - such as HTML, RSS, or other blocks that take extra time to setup and copy from course to course." At our institution, we have a standard "Instructor Information" block that we ask all our faculty to use, and currently we have to manually create that block in many courses if they are copied without overwriting course configuration (often undesirable) or have somehow gotten deleted.
Since the code to transfer blocks clearly does exist in the Restore function, we hope that separating it from the "Overwrite course configuration" option, and including it in the Import function, will not require much effort and could be fit into an early upcoming release.