Amorgos and Koufonisia sit at opposite ends of the same little archipelago, and plenty of travellers link them on a Small Cyclades loop. After the cliffs, monasteries and long hiking days of Amorgos, Koufonisia is a change of pace: low and flat, ringed by pale sand and water so clear it looks shallow even where it is not. Going this way round also puts you closer to Naxos, where most onward connections start.
The main question before you book is which Amorgos harbour suits you. Katapola, the principal port on the west side, is the easy one: Ferryhopper lists departures every day, all year, and the fastest boat covers the distance in 20 minutes. Aegiali, the port village in the north-east, is on the Express Skopelitis route only, which winds through several small islands and needs about two and a half hours. If you are staying in the north, that slow boat can still beat a long transfer to Katapola.
Three companies work the Katapola crossing, and they could hardly be more different. Blue Star Ferries is the bargain, from €5.50 when we checked, sometimes less. The Express Skopelitis is the local workhorse that runs most days in every month. Seajets adds fast catamarans from spring to autumn, much quicker than the ferries but from €28.70.
Because the trip is so short and cheap, planning is mostly about timing. On 12 August 2026, the day we sampled, the first boat left at 08:10 and the last at 14:00, so an afternoon departure is not guaranteed. Check your date, and if you are carrying on from Koufonisia, book the next leg at the same time.