The underlying floor area provisions shall apply except that:

1. Within Subdistrict A, for any building in a C4-7 District, the maximum permitted commercial floor area shall be 100,000 square feet. However, the City Planning Commission may grant, by special permit, additional commercial floor area pursuant to the provisions of Section 82-311 (Commercial floor area increase by special permit). 
2. No floor area bonuses shall be permitted within the Special Lincoln Square District except that for developments or enlargements on qualifying transit improvement sites, a floor area bonus for mass transit station improvements may be granted by the City Planning Commission pursuant to the provisions of Section 66-51 (Additional Floor Area for Mass Transit Station Improvements). For the purposes of this paragraph, defined terms additionally include those in Section 66-11 (Definitions).