I figured out that part of my problem was that I was trying to use a slightly older version of MultiTool. Once I got the right version, I was able to extract the map, but it had all the tile improvements from almost 4000 years of work. I ended up deleting them by hand (ouch!), giving me a more-or-less pristine map (aside from the fact that a bunch of forests and jungles have been cleared; I really wish I had my 4000 BC save).
If anyone knows of better ways of doing any of this for future reference when a 4000 BC save isn't available, please let us know.
Nathan
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