We were just talking about rating system selection over on this thread, and USGBC's document that gives its policies for selection.

Quoting here the LEED-CI portion of that document:

LEED for Commercial Interiors
This rating system is appropriate for interior spaces that are undergoing alteration work for at least 60% of the certifying gross floor area. If the following two statements describe the project, then a New Construction and Major Renovation rating system should be used:

1) the entity conducting the work leases OR owns and controls 90% or more of the building that the space is located in
2) there is new construction or major renovation occurring in 40% or more of the gross floor area of the building.

So where does this put your project?