We need a "Rutkowska Hand-Waving Considered Harmful".
This paper is a bunch of insinuation. It goes into great dramatic length to describe how Intel ME is more evil than AMT/vPro, which runs in the same service processor context, but then selectively uses the features of AMT and attributes them to ME. If we were talking about servers, this paper would be talking about how the service processors on HP servers could be used to build a "bad iLO" that phoned home or allowed unauthorized parties to access.
Intel devices aren't "phoning home". These claims require evidence... I don't see a network capture. Activated AMT implementations will phone back to your home, and allow things like remote control, remote bricking, or remote repair of management software.
Saying that ME is "an ideal rootkiting infrastructure" is a statement without a lot of meaning. You could make the same statement about Windows, Linux or any number of components in a modern computer.