Board Thread:Spoilers!/@comment-2153169-20151015134011/@comment-6175354-20151109235433

Eskaver wrote: Excaibur was blank and there is no Vault for Merlin's mag and stuff. Emma went to Zelena to get access to Merlin's magic in the wand.

You just answered it.... Merlin's magic is, probably, housed in the Apprentice's wand.