Re: Dumb questions about happiness...
Some files are read only when the map or game is created, others are read dynamically. SystemNames.txt is one of those only read when the map is created. Happiness.txt (as most of the files) is read constantly, and so changes to it will be reflected in your savegame.
Are you losing any battles? What is happening in your empire that would affect happiness? What log Messages do you get about happiness levels each turn?
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