fMRI limitations

The Christian Delusion rests several key conclusions regarding religious belief formation and related phenomena on what functional Magnetic Resonance Imaging scans tell us about the brain. But many philosophers and scientists argue fMRI scans (as well as other technologies) have their limitations. Here are a few examples:

• "Over-interpreting Functional Neuroimages" (PDF) by Marc Burock (2009).
  
• "What we can do and what we cannot do with fMRI" by Nikos Logothetis (2008).
  
• "Seeing is believing: the effect of brain images on judgments of scientific reasoning" (PDF) by David McCabe and Alan Castel (2008). This isn't about fMRI's limitations. Rather it's about how the scientifically untrained are prone to believe statements more strongly if they are dressed up in the guise of science. Surely a lesson for Loftus and his crew who think way too highly of the amazing superpowers of "science"!
  
• "Neuroscience and the Art of Single Cell Recordings" by Valerie Gray Hardcastle and C. Matthew Stewart (2003).
  
• "What Do Brain Data Really Show?" by Valerie Gray Hardcastle and C. Matthew Stewart (2002).
  
• "Epistemic Issues in Procuring Evidence about the Brain: The Importance of Research Instruments and Techniques" in Philosophy and the Neurosciences: A Reader by William Bechtel (ed.) (2001).
  
• "Functional Neuroimages Fail to Discover Pieces of Mind in the Parts of the Brain" by Guy Van Orden and Kenneth Paap (1997).
  
• "PET: Exploring the Myth and the Method" by Robert Stufflebeam and William Bechtel (1997).
  
• Wikipedia: Issues in fMRI