They already were flagged as account, I had them on 3 characters at the time.
It's probably like Atherial said, it was a temporary promotion which somehow expired without nobody noticing or them telling us.
I don't want to whine over measure, the item is not even *that* useful now that we have Spring, but still I'm a bit OCD and a bit of a packrat, and I'd really love to be able to get them again or, if not possible, to transfer them from my old characters to the new one.
@Eondil
Sorry but I had 3 characters, created at different time (one at launch, 2 much later, shortly before FFXIV 1.0 stopped being for free) and all of them had Hermes Shoes.