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I would say that if you are modelling the fan in the proposed case you should take account of it in the baseline case. If the fan has outdoor air coming in, I would either add this quantity of outdoor air to the overall AHU and put it through the baseline system that way. If there is only the fan in this room then I would model system 3 or system 4 in this space specifying the outdoor air that is coming through. It is a difficult question and if you have time you can send it to GBCI, they will answer with advice in about 2 - 3 weeks.