Brands: Acqua di Parma, Clean, Kiehl's, Korres, Linari, La Compagnie de Provence, Molton Brown**.
Brands: Astier de Villatte, Cire Trudon, Fornasetti, Jardins d'Ecrivains.
Brands: Laboratorio Olfattivo.
Brands: there used to be Honore des Pres.
Gaudette
Brands: MALIN+GOETZ. Some time ago Byredo used to be there.
SAMUJI
Brands: Cire Trudon.
Brands: Molton Brown.
Anne's Past & Present
Brands: Astier de Villatte.
Temp design
Brands: Ortigia.
Brands: Baobab Collection, Voluspa*.
Brands: Florame, Terre d'Oc.
Brands: Clean.
Brands: Andrea Maack, Comme des Garcons(most probably including the CdG' series).
Closed Stores
*According to the homepage of the brand.
Some updates to your list:
The Green Dress and Livia Jacopa don't exist anymore
Stockman doesn't have Etro and Carthusia in their selection anymore. And I'm quite sure, but not 100% sure about Escentric Molecules not being available there either.
Thank you for your great blog, I am going to Amsterdam and printed your blog post about it to take with me 🙂
I was there in Spring 2012 and made a blog post about the shops I visited then, only it's in Finnish only.
http://sinistapintaa.blogspot.fi/2012/03/amsterdamin-tuoksu-ja-kosmetiikka.html
Dear hellin, thanks a lot for update!!