Let KAYAK do the searching
Based on KAYAK hotel searches, the most popular destination is Füssen (51% of total searches to Bavarian Alps). The next most popular destinations are Berchtesgaden (26%) and Garmisch-Partenkirchen (15%). Searches for hotels in Ehrwald (8%) are also popular.
KAYAK users have found double rooms in Bavarian Alps for as cheap as $127 (Reutte) in the last 3 days. The average price is $374.