It's fascinating the way different atmospheres affect people. I've read the whole thread to see if others have had similar experiences to mine. Some ring a bell.
I love both York and Bath. The only thing that freaks me out about the minster is the exorbitant entry fee they now charge. But in Bath, the area around where most of the big hotels are has a very sombre air. Yorkshire Air Museum, based at Elvington, also has a heavy, haunting atmosphere. Ditto Castle Howard: not only the huge, crumbling building whose back is falling down and which is only half-habitable but its remote, windswept location. It feels odd for reasons I can't define.
Beachy Head and the whole area surrounding it feels not only atmospheric but positively menacing. There's a compelling feeling as if those cliffs are actively pulling you toward the edge. It's sheer rot I know, but if ever a place feels sentient and malevolent that one does. Interesting that someone else mentioned Portland Bill. That place (and Chesil Beach) affected me in the same way. Salisbury Plain is another, and a more random one: Birmingham New Street Station. I hate it.
A holiday let I once stayed in in Brockenhurst had a horrible atmosphere upstairs. Evidently it wasn't just me affected: DS insisted we close his bedroom door because the landing freaked him out too.
Savernake Forest and Betws y coed I love!