It's important to note that the FCC is avoiding dealing with the peering issue (so, for example, Netflix's issue) with their current proposal. Wheeler specifically said that they want to delay that part of the net neutrality debate until later. In my view that's a mistake.
I think that the concerns that the stated goals of this effort cannot be met without addressing peering is a concern that should certainly be raised in the comment period (I'm not sure I agree with it, but I'm sure that some of the people raising it have thought about it more than I have and can present an argument that lays out why that is the case so it can be evaluated.)
