I was in Munich in the fall for a week and enjoyed shopping at various stores there. I bought some make up and skin care in the center of Munich and at the airport. These were some of the stores I went to. These were all near Marienplatz.
I can't find the website for this store but it was really nice with some brands like Jo Malone, Neal's Yard, Kiehl's and Aesop.
This was one of my favourite because it has a huge selection of skin care and cosmetic brands. They also carry some niche brands which are hard to find anywhere else.
This was a big department store in the center right next to Marienplatz. It has a great make up department with exclusive brands like Penhaligon's, Annick Goudal, Coudray and a really nice handbag section. You should check them all out when you're there.
Munich is a great city for shopping as it has every brand available in the downtown area. There are also many clothing shops and high end designer stores as well. After all, window shopping is fun and free!