What's there to be confused about? Their stance on Bitcoin is getting clearer and clearer the way I see it. They've already said that they don't plan on banning it, choosing to go the regulation route, and now they've ruled that it has value, and can therefore be confiscated.
Seems to me like they do accept its integration with society, for as long as it's not abused by shady individuals. South Korea is a major cryptocurrency market, and it's looking like it will continue to be. The crackdowns are just noise; most of these have already been done by countries like the US (regulation of exchanges, taxation, seizing Bitcoins, etc.).
Do not be confused since this is already expected. We in the crypto community has created something of value from nothing. As to what they did when they created fiat, money worth nothing but a piece of printed paper back then until people started using it and adapting to the new system. Change is inevitable.