iBooks syncs to the iTunes account and NOT the iCloud account

As the title says, this is still happening. It was previously mentioned in February 2012, March 2012, and September 2012. I understand that technically it would be an issue to sync collections that have been purchased under iTunes account A, but the sync request is coming in from iCloud account B, but it's not like Apple hasn't figured out a way around things before:) Bookmarks and highlights and where-you-left-off marks should all sync up with my iCloud account. It is counter-intuitive that my iTunes acounts is being used for metadata synchronising. And it's VERY frustrating!