I am booking hotels for my September 2014 Switzerland trip. Looking at the hotel's own reservation websites as well as Booking.com and Hotels.com, I found low availability and high prices for my dates. I then directly e-mailed the hotels I was interested in, and without exception, they had rooms available that weren't showing on the online reservation systems (even their own), and/or they offered me a better price (in one particularly dramatic case, the website only offered triples, while the direct offer was for the single I needed, at less than half the price!)
I'm reporting this so others can know that you should definitely inquire directly with any hotel you're interested in. But I'm curious - is something going on in Luzern from September 12 through 15, or in Lausanne from September 19 through 22, that would make rooms scarce and expensive? I once had trouble getting a room in Frankfurt, and found out that it was a meatpacker's convention - over 200,000 of them!