The problem is, the FMS ... does not directly control an airplane the way people think it does, and the way, with respect to this story, media reports are implying. Neither the FMS nor the autopilot flies the plane. The crew flies the plane through these components. We tell it what to do, when to do it, and how to do it. Whatever data finds its way into the FMS, and regardless of where it's coming from, it still needs to make sense to the crew. If it doesn't, we're not going to allow the plane, or ourselves, to follow it.

[link to www.theregister.co.uk]

Faa wants to debunk the news Android could take over a plane.