Comply with a minimum building area to site area ratio

We are working on a small scale LEED-CI project that the area is about 8,700 sf. We currently face a problem when filling the information in the template. The project is located at a mixed-use complex building, in which the area is about 4,000,000 sf and the site area of that complex building, including some parks, water features etc., is about 800,000 sf. When I tried to fill in the online template (version 4) of PI form 2, page 2 of the template will automatically calculate that the "project space area to site area ratio:" is about 1%. Most importantly, there is a sentence appeared in red colour under that sentence, which mentioned "The project space area to site area must be at lest 2% to meet the minimum program requirements." So does anyone experience this before? I wonder for this kind of CI project, is it possible to exempt this requirement? If no other better suggestion, we may assume a smaller total site area (excluding those parks and water features) and fill into the template so that it can meet the 2% requirement.