Let me be the first to say this: You're late, bro.
The only reason why we decided to stay on DN is because for YGOPro, you'll need an active network. Hamachi has a room limit so it's a hassle to create a lot of rooms so everyone can play with everyone else. Plus, some people have problems connecting to YGOPro and things.
I only use YGOPro for deck building when my internet dies on me. I support YGOPro and all but it's sorta dead atm since a lot of people prefer DN.