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I guess it depends on how exactly the energy is put into the system, but most mixtures of chemicals will reach an equilibrium, even if additional energy is pumped into them. If the incoming energy is constant, it may be a different equilibrium than would be attained without the incoming energy (equilibria are necessarily temperature-dependent, for instance).
I'm also not sure how to ascribe how any system "perceives itself"...
You seem to have forgotten that intelligent life is not made up merely of chemical reactions but in terms if electrical impulses as well.