The "big" one is Keepsake Quilting in Centre Harbor, NH.
Marden's is a salvage dealer and has stores throughout Maine. (The Biddeford store does not carry fabric). Not truly a fabric store, but they have awesome prices and great fabric.
Knight's in York (Cape Neddick), Maine is also a great store.
Quilted Threads in Henniker, NH. The Bunkhouse Quilt Shop in Lyndborough, NH. Bittersweet Quilt Shop in Boscawon, NH. The Waterwheel Quilt Shop in Chester, VT. Cobblestone Quilts in Townsend, MA. Charlton Sewing Center in Charlton, MA.
We used to have many more, but over the years they have closed.
Hope this list helps.