i don't understand why you wrote this if you understand that it "it all comes out in the wash". the cost of living adjustment is absolutely necessary here:

http://money.cnn.com/calculator/pf/cost-of-living/index.html

100k in manchester nh is ~150k in sf. maybe you're a little underperforming but who cares! or maybe you care and you should use this data to negotiate a raise :)