Hotels in Lincoln County

Mid-Town Motel - Queen Bed Room - Private Bath

Mid-Town Motel is a vintage motor lodge offering pet-friendly accommodations and located a short two-minute walk to Boothbay Harbor's downtown. Our motel is located right in town yet in a nice, quiet setting with beautiful grounds. Warm, friendly service and hospitality awaits you, as it has for over 66 years. If your plans include a visit to Boothbay Harbor, make Mid-Town Motel your home base while you explore the area, and see why this small 1950’s classic has truly stood the test of time.

Mid-Town Motel - Two Twin Bed Room - Private Bath

Mid-Town Motel is a vintage motor lodge offering comfortable accommodations and located a short two-minute walk to Boothbay Harbor's downtown. Our motel is located right in town yet in a nice, quiet setting with beautiful grounds. Warm, friendly service and hospitality awaits you, as it has for over 66 years. If your plans include a visit to Boothbay Harbor, make Mid-Town Motel your home base while you explore the area, and see why this small 1950’s classic has truly stood the test of time.

Crow's Nest @ The Thistle Inn

Indulge in luxury at The Thistle Inn, Boothbay Harbor. Our expansive Inn Suite offers two floors of refined elegance for families and groups. Relax in the regal master bedroom or the spacious living area with a sleeper sofa. Enjoy coastal inspired décor and ample natural light. A fully equipped kitchen awaits culinary enthusiasts. Two twin beds ensure comfort for companions, with modern bathrooms for convenience. Experience extraordinary hospitality where every detail exceeds expectations.

Cozy & Stylish | Premium Double Room Near Downtown

Discover comfort and convenience at Flagship Inn & Suites. Our first-floor, non-smoking room features two double beds and a full bath, offering a relaxing, pet-friendly retreat. Enjoy modern amenities, including complimentary Wi-Fi, TV, air conditioning, microwave, mini-refrigerator, and coffee maker. Start your day with a complimentary continental breakfast. Thoughtfully designed for your comfort, our accommodations ensure a memorable stay where relaxation meets exceptional hospitality.

Royal Comfort King Bed

Welcome to our newly upgraded Premium King Room at Flagship Inn & Suites, designed for comfort and style. This modern retreat features brand-new furnishings, a plush king bed, and a sleek walk-in shower. Located on the first or second floor, our smoke-free room includes complimentary continental breakfast, high-speed WiFi, a flat-screen TV, air conditioning, a microwave, mini-refrigerator, and a coffee maker. Experience contemporary elegance and thoughtful amenities for a relaxing stay.

Admiral’s Quarters 14 –Penthouse King Suite, VIEWS

Admiral’s Quarters Room 14 is a premium 2-room penthouse suite with stunning harbor, lighthouse, and ocean views. The king bedroom features a wall of windows, private balcony, and fireplace. A second room offers a twin trundle bed and built-in storage with a mini fridge. Enjoy a walk-in glass shower and two entrances—one private. Perfect for couples or small groups seeking a scenic, quiet retreat in Boothbay Harbor.

Admiral’s Quarters Room | Stunning Views, King Bed

Wake up to sweeping harbor views in Room 15 at Admiral’s Quarters Inn. This elegant 2-room suite features a King bed, twin trundle, fireplace, private balcony, and a wall of windows overlooking Boothbay Harbor, islands, and lighthouses. Enjoy a walk-in shower, mini fridge, and two private entrances—all just steps from downtown shops, dining, and waterfront adventures. One of the inn’s most requested rooms!

Main Inn Harbor View

This two-room two queen bed handicap accessible unit is located on the second floor (street level, no stairs) of our Main Inn Building with a private double balcony at the Tugboat Inn. Along with beautiful views of the harbor, we also have an onsite restaurant with all your seafood and land favorites! We are also walking distance from downtown Boothbay Harbor where you can enjoy many shops and restaurants.

Stay in our cozy, newly renovated motel-style room

Welcome to our charming Airbnb motel in the heart of Boothbay! Our newly renovated rooms offer cozy comfort and modern amenities, all nestled alongside a beautiful garden. Enjoy exclusive discounts at our sister businesses, including a delightful coffee and bakery shop, the town’s best sushi and seafood restaurant, and a homemade ice cream factory. Experience Boothbay's finest while staying with us!

More then a Motel with Garden

Welcome to our tranquil hotel with lush gardens and newly renovated rooms, offering a blend of modern comfort and style. Explore our town through our partnerships with a cozy coffee and bakery shop, a top-notch seafood and sushi restaurant, and an exclusive ice cream factory, all offering our guests special discounts. Experience hospitality intertwined with local flavors for an unforgettable stay.

Luxurious Family Comfort Premium Suite

Discover comfort and convenience at Flagship Inn & Suites. Our non-smoking rooms with two double beds and 1 king bed with separate room and also 2 separate baths are not pet-friendly. Enjoy complimentary continental breakfast, TV, Wi-Fi, air conditioning, microwave, mini-refrigerator, and a coffee maker. Your ideal retreat, where relaxation meets thoughtful amenities for a memorable stay.

Windward Junior Suite

The Windward Junior Suite is private, spacious, and beautifully appointed. Enter the room from the 180 sq/ft open-air private deck overlooking the harbor. The sitting area right inside the door features bathing with a view—the soaking tub for two overlooks the private deck and harbor beyond. Past the sitting area is the bedroom and bathroom with double vanities and walk-in shower.