Does Appendix G or LEED modeling protocol require the baseline building be modeled with all of the mandatory provisions of Section 6.4? And if so where is this stated?

Appendix G implies it, but it is never specifically stated. Other mandatory provisions are specifically identified in appendix G (specifically envelopes, DCV, etc). Even the DCV reference only states that you ventilation rates must match in each model except in areas with DCV not required by Meaning that the model doesn't necessarily have to comply with the mandatory provision, but it can't show savings against this requirement.