It is entirely reasonable for mathematics to have no basis in physical reality. Mathematics is all about relations between things (if this has that property; it follows that...) and this has implications far beyond physics (eg, statistics and probability have implications for physics, but applications almost literally everywhere - these ideas are bigger than physics). This essay is relevant to teaching mathematics to people who are more comfortable with physical examples than with abstract logic. Fair enough, realise that this is calling for 'mathematics for physicists' rather than a better way of understanding maths.
Making the connection that all the mathematics we do is done in the context of reality doesn't make mathematics a subset of physics any more than history is a subset of physics. If every theory we have about the universe was proven wrong tomorrow then physics people would need to get very busy indeed - but mathematicians wouldn't even notice.