Just one quick Q. I worked on a set of mountains to see how they would turn out. To try a comparison turning up the settings for erosion, fractal etc I did another set of mountains and in a different session painted the new effects on to them. I did not apply to the whole map, just the new area, however when I re-do the heightmap it appears to work over the settings on the old mountain range. Is this true? Or does it only apply what has been added since? Does that make any sense? Its hard to explain.
Switch to a different display in Design map to see what happened to your noise settings:
"View" -> "Display effects" -> "Design map schemes..."
For example, choose FracEdit there so you can inspect how strong Fractial is set on every Design pixel. It shouldn't overwrite the former settings of a different part of the map.