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So as part of the EnergyPlus development process, we run tests on every commit and we get 100% repeatable results. Not just down to a tiny epsilon, but the same outputs. I don't see any possibility that it spontaneously started producing different results. The only possibility I see is that if your simulation is relying on the Energy+.ini file and it is pointing to some other folder to find some outside dependency and that accidentally changes. From an EnergyPlus standpoint, if you give the same idd, idf, and epw, (and any other outside dependency files such as csv schedules), it will produce the same results.