Since this second home has separate meters/bills for all the utilities just enter them as direct Sch C expenses and use the same information you used for the Sch E on the Office in Home form 8829. Any common expenses should be prorated between the 8829 and the Sch A.
On the Sch E you will take the asset out of service (hopefully you have been depreciating it correctly ... if not RUN to a local tax pro to get this corrected properly) then the asset is added to the office in home using the current adjusted basis. If this sounds complicated then either find a local tax pro OR upgrade to one of the LIVE options for personalize assistance.
