I've found that you really only need to micro manage at the very beginning and at strategic points at certain points of the game. Otherwise letting them run rampant works fine.

Only change I would like to see is the removal of marshes from the "don't clear forest marshes" options. Marshes are just useless and its annoying being allowing to build crap over them. They don't provide something of equal or greater value like forests do compared to when they are cleared.

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