[Nebullis]

The concern with methodology in philosophy of science are beside the point if one steps larger afield and questions the assumption that anything of truth or value can be obtained by science at all. Of course there's a historical context, and the direction science took hundreds of years ago, may not be justified. Philosophers, theologians, and other real human beings may ponder this a fair bit, but I don't think one can assume that if the scientific assumptions are put on their head that the established methodologies will lead to a different truth. The methodologies simply become irrelevant.

[cornelis]

I don't think one can assume that if the scientific assumptions are put on their head that the established methodologies will lead to a different truth

I suppose you could see it this way. Also, these methods would lead to different objects, objects which alone are amenable to current tools and methodologies.