That's very strange. I loaded up the iOS simulator (heh, because I don't feel like getting my phone) and I was able to confirm the difference. On the second link, while not a perfect layout (portrait), it does have signs of responsiveness. However, if I load up the page in my desktop browser and set the width to an iOS size, nothing happens. That doesn't make any sense to me.
Theoretically, a Hype project should resize gracefully. That's why I'm still thinking something is wrong with the Hype project. With the iFrame mode for the WordPress plugin, the Hype project should just resize.