In the Skyrme model with massless pions, the minimal energy multi-Skyrmions are shell-like, with the baryon density localized on the edges of a polyhedron that is approximately spherical and generically of the fullerene-type. In this paper we show that in the Skyrme model with massive pions these configurations are unstable for sufficiently large baryon number. Using numerical simulations of the full nonlinear field theory, we show that these structures collapse to form qualitatively different stable Skyrmion solutions. These new Skyrmions have a flat structure and display a clustering phenomenon into lower charge components, particularly components of baryon numbers three and four. These new qualitative features of Skyrmions with massive p...