There are already excellent bibliographies online for Geometry and Polyhedra, so I’ll simply list and link them rather than recreating them.
1) Annotated Bibliography related to Geometry:http://www.math.cornell.edu/~henderson/biblio/
1) George Hart’s annotated bibliography for polyhedra:http://www.georgehart.com/virtual-polyhedra/references.html
Here are a few books on Chemistry and Nanogeometry that I found inspiring:
1) New Geometries for New Materials:http://met.iisc.ernet.in/~lord/
2) Classics in Hydrocarbon Chemistry:http://www.amazon.com/Classics-Hydrocarbon-Chemistry-Syntheses-Perspectives/dp/3527296069