I mean just because an assumption is necessary and reasonable for exploring the mechanics of the universe does not mean you can simply extrapolate to something as mysterious as the nature of consciousness and free will.
(Edit: Changed "Theory of Mind" to "Philosophy of Mind"... psychology lingo crept in there for a second)
With a question as ill-posed as the nature of consciousness, what's reasonable and what's overzealous depends entirely on your perspective.
The nice thing about science is at least it is actively questioning itself all the time. However individual scientists can easily subscribe to a philosophically materialist viewpoint without adequate evidence simply because they've spent their whole lives devoted to physics. The study of the correlation between the brain and consciousness needs to go much much deeper before they even hope to come close to having a crack at the free will debate.
Also, I find it hard to believe that free will "lives" in one or another part of the brain; neither determinism nor randomness is freedom, and a physical "organ of free will" would have to be either deterministic (from macro-scale physics) or random (from quantum-scale activity).
I agree that living without free will is probably psychologically insupportable; even Muslims and Calvinists, who believe in double predestination (and Marxists, who believe in historical determinism), live as if free will was true. (Read _The Pilgrim's Progress_ and tell me that Bunyan really believed Puritan doctrines...)