Let KAYAK do the searching
Based on KAYAK hotel searches, the most popular destination is Puerto Ayora (60% of total searches to Galapagos). The next most popular destinations are San Cristobal (28%) and Puerto Villamil (7%). Searches for hotels in Puerto Baquerizo Moreno (6%) are also popular.
KAYAK users have found double rooms in Galapagos for as cheap as $26 (Puerto Ayora) in the last 3 days. The average price is $382.