Meganisi has many small and very nice beaches. The best known beaches are Spilia Beach, Ambelakia Beach, Agios Ioannis Beach, Pasoumaki Beach, Atherinos and Limonari Beach. Most of these beaches are small pebble beaches. Not all the beaches on Meganisi are accessible by foot and most of them have no facilities like tavernes, sunbeds and parasols.

Spilia Beach is perhaps the best know beach of the island Meganisi. It is found at a distance of about 1 kilometer of the harbour of Spilia. The beach is very beautiful with white pebbles and crystal clear waters. The beach is surrounded by trees so you can find a place in the shade if you want to. There are a couple of tavernes at the beach. Usually it doesn't get too crowded on Spilia Beach.

Agios Ioannis Beach is a large beach on the west side of the island. It is named after the nearby church of Agios Ioannis. It is an unorganized beach, quite narrow and long but normally not crowded (because there is plenty of space). As there are no tavernes and sunbeds & parasols on this beach you have to bring your own food and water and also a very good sunblock. Around the beach it is quite green with bushes and trees so it is possible to find some shade. Agios Ioannis Beach can be reached over a path leading from the village of Spartochori.

Megalo and Micro Limonari beach are two beaches close to the village of Katomeri, from where it can be reached over a path. These beaches are more sandy and they are normally quiet. Megali (meaning large) Limonari is the largest of the two whereas Micro (small) Limonari is more like a cove. The beaches are surrounded by trees and greenery for shade. The water at these beaches has a green blue colour.

Fanari Beach is situated not far from the village of Vathi. It is a beautiful and quiet beach. This beach is also unorganized, but it is surrounded by lush vegetation for shade and it is very picturesque. Fanari is a pebble beach with clear waters. It can be reached on foot from the village of Vathi.