The character isn't the reason I love the name either. It definitely brought the name to my awareness but I love the history and the association with
Hermes and the sound. I think you'd have people asking about an HP connection but I think you could clearly answer that while you love HP,
Hermione Granger was not the inspiration for the name and you liked the history of the name and how it went with
Theodora.
Having a
Theodora makes that completely believable to me. If you had an
Emily or a
Ruby or something and then tried to tell me that you just liked the name
Hermione so you used it, I'd raise an eyebrow considering the lack of adventurousness for the first kid. But you have a
Theodora. You've clearly established that names with long histories, especially with Greek roots, and that are very unusual is what you guys actually like and you named your first daughter a non-HP to any other fandom name that is very rare and so this isn't just a bandwagon thing.