Physics is the poster child of a discipline that knows its foundations are wrong. Basically every physicist understands that our current theories are full of holes and a new way of thinking is needed. So I don't really buy the idea that physics in particular is stifled by a rigid adherence to the status quo.
The charitable version of this is that to reconcile all the holes, we in fact need radically new and different mathematical underpinnings that aren't currently on the horizon. I don't know how that could be true; certainly any new foundation would have to reduce to something very like the current theories under already-studied conditions. If it is, though, we might be on a really big local maximum, and the path off of it might look really weird and nonsensical for a long time (which is why I can't quite bring myself to fully dismiss Stephen Wolfram, for instance :D).
