Yes. Any videos streamed over native AirPlay can be controlled with the Apple TV remote, or with the Infuse app.
I'm still undecided with the pro version. It's really an awesome app. The best media player I've tried so far. I'll give it a couple of days before I pull the trigger on the pro version. Wish it was a bit cheaper. But it's a well polished app so I underatand the premium price.
Thanks for the quick response, I appreciate it.