Nyborg Marina also houses a small commercial harbour, Fiskerihavnen.
Jollehavnen is intended for dinghies without a mast.
Vesterhavnen is located close to the newly-built maritime buildings, both owner-occupied flats, rented and cooperative housing.
Østerhavnen is located right next to the town centre, making it an attractive part of the town.
In November 2019 the City Council decided that the hitherto officially named port site was named Heimdals Plads.
At Kongens Skibsbro, the Royal vessel and other larger ships are mooring when visiting the city.
Kanalhavnen starts in Østerhavnen and flows into a former DSB ferry berth.
In 2021, Nyborg Marina has inaugurated a completely new basin "Tømmergraven".