In what part of it? That thing is pretty deep (the shuttle fits in it just fine).
Just from the pictures they've shown us, the Starviper is roughly the same width as the base it's on, and maybe 1.5-2x the length; on it's back I'd imagine it's pretty shallow.
Anywhere other than the deep storage space in the bottom layer. I am hoping it is no worse than storing the b-wings which is ok.