- Guanaja is a city situated in the Bay Islands department of Honduras. It is located on the island of Guanaja, which is part of the Caribbean Sea. Guanaja is known for its beautiful beaches, crystal-clear waters, and vibrant coral reefs, making it a popular destination for snorkeling and diving enthusiasts. The city itself has a small population and offers limited tourist facilities, making it a quieter and more laid-back alternative to the bustling island of Roatán. Guanaja also has a rich history, with remnants of ancient indigenous settlements and colonial-era buildings still visible in the city.