Holy is a part of its nature and is therefore apart of It Is What It Is trapping of IoPs, and does not cost any refresh.
A sickle is intrinsically holy, completely independent of its supernatural nature?
"It Is What It Is. The item is often based on a mundane template—a sword, a shield, a suit of armor—and as such may have some armor or damage values completely independent of its supernatural nature. Swords will have damage bonuses like swords, armor will protect like armor. All the same, the item should be obvious as something unusual."
Any supernatural properties of an item -- that is, anything you wouldn't find on the shelves of the local WalMart -- is a power, and needs to be paid for. So, for example, you can't say "It's a flaming sword" and claim that it does weapon:6 and inflicts the "On fire" aspect for free. If you don't believe me or the text I quoted above, look at the entry for Swords of the Cross, and note that it has a separate line item for "Holy".