The 9 Best Malta Bay Cruises

1.St Paul’s Bay: Comino, Blue Lagoon, Gozo, & Caves Boat Tour

★★★★★★★★★★4.5 · 1,436 reviews · 5h 30m · from $29Our pick

Cruise from Bugibba on Mermaid Cruises to Comino’s Blue Lagoon, Gozo, Santa Maria Caves, and Elephant Rock. Expect English commentary, swimming stops, a two-hour Gozo visit, onboard drinks, and a smaller boat for $29, with snorkeling gear available to rent.

“The tour was super! The captain and his asssistant were very nice and approachable. And toward the end of the tour they gave us some pineapple. The drinks were very cheap so I would recommend to buy your drinks from the boat. I wish the Blue Lagoon stay was a bit longer 2hrs should be allotted for swimming in the Lagoon but overall, it was perfect! Thank you!❤️”

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2.Gozo Comino and Blue Lagoon Boat Tour with Swim Stop

★★★★★★★★★★4.5 · 445 reviews · 6.5 hours · from $33

Cruise from Mellieħa Bay past Malta’s sea caves and Comino’s coves, spend about three hours in Gozo, then swim from the boat at the Blue Lagoon. Optional Gozo bus and cave trips cost extra. Bring cash, swimwear, a towel, and sun protection.

“The Boat Trip was Brilliant The Blue Lagoon was Fantastic can't fault Anything Really”

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3.Marsamxett Harbour and Grand Harbour Cruise by Night

★★★★★★★★★★4.3 · 282 reviews · 1.5 hours · from $24

Cruise from Sliema Ferries at 20:30 through Marsamxett and Grand Harbours, passing the Yacht Marina, Valletta’s fortifications, the Three Cities, and ten creeks. An English commentary explains Malta’s port history while you enjoy the night views from a Maltese boat.

“It had been a nice experience to sail with thw relieving sea breeze through capital's ports and marina's. The explanations were easily nad clearly heard even by most of us who remained outside on the deck. The only problem was that afterwards there was no shuttle serice for us staying in Valetta. After a phone call, however, this was solved after some time.”

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4.Comino Blue Lagoon & Crystal Lagoon – 3 Bay Cruise

★★★★★★★★★★4.9 · 249 reviews · 6 hours · from $47Top rated

Join Bluewaves Watersports for a six-hour cruise from Marfa Bay to Crystal Lagoon, Blue Lagoon, and Ħalfa Rock. You get four hours in the water, space for just 45 people, a toilet, fresh-water shower, and an onboard bar. Crew members including Danny and Ali help with swimming stops and sightseeing.

“We enjoyed everything. As mentioned in the comments and the tour description, the boat wasn’t overcrowded, which allowed all guests to move around and relax comfortably. We chose to stay on the boat instead of going ashore at the Blue Lagoon — and we didn’t regret it. At each swimming stop, we went snorkeling. While the spots weren’t teeming with fish, we still managed to see some — even a moray eel! The crew was very friendly, and the €5 Aperol Spritz was delicious. Highly recommended!”

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5.Valletta & Three Cities Harbour Cruise

★★★★★★★★★★4.0 · 239 reviews · 1 hour 30 minutes (approx.) · from $23Best value

Start at Sliema Ferry for a 90-minute harbour cruise past Fort Manoel, Valletta, Fort St. Elmo, Fort St. Angelo, and the Three Cities. You can try to stop at Esplora Science Centre, then return by boat or hop-on hop-off bus. English is offered, and admission to Esplora costs extra.

“It was beautiful, my first boat cruise. Staff was really nice and helpful. The tour guides gave detailed explanations.”

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6.From Mellieha: Three Bay Cruise including the Blue Lagoon

★★★★★★★★★★4.9 · 225 reviews · 6 hours · from $47

Set sail from Marfa Bay on the Pegasus for a six-hour cruise to Comino’s Blue and Crystal Lagoons and Gozo’s Halfa Rock Bay. Crew members such as Danny and Ali share local details, while you choose between swimming, snorkeling, sunbathing, or staying aboard.

“The stuff and the captain are so so nice, very nice people and perfect service. All good!”

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7.The Traditional Harbour Cruise

★★★★★★★★★★4.0 · 159 reviews · 1 hour 30 minutes (approx.) · from $24

You’ll cruise from Sliema around Valletta and the Three Cities, seeing forts, battlements, dockyards, marinas, and ten historic creeks from the water. English commentary explains Malta’s story, while a bar and toilets add comfort. Hotel pickup may be available, but confirm the exact meeting point and boat.

“Just about the right length at 90 minutes. Any longer in my experience induces lethargy. Crew was pleasant and came round to take orders for drinks. Clear oration in the audio guide that played through the tannoys”

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8.St. Paul’s Bay: Half-Day Scenic Catamaran Tour with Drinks

★★★★★★★★★★4.8 · 157 reviews · 3 - 4 hours · from $59

From Fekruna Jetty, sail with up to 20 people to Santa Maria Caves, Blue Lagoon, and Crystal Lagoon. Crew members such as Bim, Idola, Dustin, and Fernando have been praised for friendly service. Beer, wine, soft drinks, snorkel masks, and shared SUP boards are included.

“Really great trip. Worth the little extra you pay instead of the boats with lots of people. Credit to the crew.”

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9.Valletta Harbour Cruise

★★★★★★★★★★4.5 · 129 reviews · 1 hour 15 minutes (approx.) · from $24

Board Luzzu Cruises at Sliema Ferry 4 for an approximately 1-hour-15-minute harbour cruise. You’ll pass Valletta’s walls, Fort St Elmo, the Three Cities, and Fort St Angelo while hearing about Malta’s major sieges. The boat holds up to 70 people and returns to Sliema.

“A spectacular boat trip, impressive city!! Good value for money. Loads of space, left on time. The commentary was informative, so much history.”

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