In The Book Lisbeth Salander has "a pierced nose and eyebrows"

In the movies the collection is expendid a bit:

Noomi Rapace added the Septum and the mutipel earrings

Noomi Rapace

in her right ear and 1 on the left

Rooney Mara added a lipring
Lisbeth rooney 500

Rooney Mara, as Lisbeth Salander, on the cover of W Magazine

and a nipple piercing and changed the earring placement