Gollytwo and ghostrider have excellent choices for NH quilt shops.
Quilted Threads, Henniker, NH
Becky Weber, the owner has a warm, friendly and knowledgable staff along with a beautiful store. Excellent selection of fabrics, patterns, products. Great online presence also, (online store front in progress). An amazing variety of workshops, classes and events for all level of quilters and quilt lovers.
The Country Heart Quilters, Plymouth, NH
Loretta Bothelo, a sweet lady and store owner has a great although small store and she's managed to not make the store look "stuffed". Wonderful selection of country/folk fabrics, patterns, notions/products. Offers a variety of classes with a nice classroom area. She's looking to relocate within the Plymouth area to offer more fabric/products and a larger class space, wish her luck when she finds a new home!
Some others to visit:
The Quilting Corner, Tilton, NH
Pine Tree Quilt Shop, Salem, NH
The Quilted Frog, Weirs Beach, NH
Keepsake Quilting, Center Harbor, NH