Abstract
This chapter outlines a metaphysics of science in the sense of a naturalized metaphysics. It considers in the first place the interplay of physics and metaphysics in Newtonian mechanics, then goes into the issues for the metaphysics of time that relativity physics raises, shows that what one considers as the referent of quantum theory depends on metaphysical considerations and finally explains how the stance that one takes with respect to objective modality and laws of nature shapes the options that are available for an ontology of quantum physics. In that way, this chapter seeks to make a case for a natural philosophy that treats physics and metaphysics as inseparable in the enquiry into the constitution of the world, there being neither a neo-positivist way of deducing metaphysics from the formalisms of physical theories, nor a neo-rationalist realm of investigation for metaphysics that is independent of physics.