At this time, the EndNote X6 Sync feature does not allow Smart Groups to transfer between computers. A new plug-in now makes it possible to transfer the Smart Group information. Please see the following Knowledge Base article for details:
http://help.thomson.com/default.asp?portalid=tsc&refid=TS_ENSYNCSMARTGROUPS
Jason Berman
Technical Sup Rep RS
Thomson Reuters
Phone: +1 800-336-4474
thomsonreuters.com