I disagree. A materialistic worldview does not ignore supernatural explanations. If a supernatural explanation has good evidence for belief I will believe it. If a supernatural being interacts with this world science should be able to study that interaction.
But that is self-refuting. How can a scientific method provide evidence or an explanation of the supernatural when the supernatural is beyond what science can explain. If it can explain the supernatural then it is no longer supernatural according to science. That is the nature of how science works.
Science could have current theories that are explaining supernatural events like gravity for example. Basically what we see is large solid objects floating in mid-air which by all accounts could be classed as supernatural. But because science comes up with an explanation it is deemed a natural event. But who says so. It is humans who create this explanation that limits phenomenon to nature. Science is only an explanation and explanations don't have any creative power. Like math, is math created or discovered.
The problem is if a supernatural event happens how do you know it is supernatural and not a natural phenomenon that we don't understand yet?
But who said creating an explanation to help understand something within an assumed worldview is a natural phenomenon. Taking that position even if there was the supernatural it could never by acknowledged because people are assuming what is in the first place.
There was a Gilligan's island once where some natives captured everyone except Gilligan. He used the radio to portray himself as a god to scare the natives away. The natives did not understand the technology and assumed a supernatural cause. Sufficiently advanced technology is indistinguishable from the supernatural. What method do we have to tell the difference?
But what your explaining here is an assumption of what is and should be. So everything is made to fit according to that assumption. We would not have a chance to even tell the difference between only one explanation is being accepted and therefore looked for.
The question should be asked who says hat the scientific method is the only way to measure and explain things. If we turned things on its head and took a metaphysical approach then this becomes the assumption then all of a sudden we have different explanations that are claimed to be valid. We have moved well beyond the simple explanations in the Gilligan Island example. We are at the point where even science is now appealing to explanations beyond science because science is inadequate to explain what we see. Not because we just don't know but because that is where the evidence points.
What gaps are you talking about? Are you claiming that scientists are not following the evidence?
There are jumps and assumptions that do not fit what we see with traditional explanations. One example is convergent evolution. Similar traits between creatures on distant branches of the evolutionary tree were said to just be a coincidence of similar environments producing similar outcomes. But now we see that it is more than this and goes right down to the genetic and molecular level.
It seems all living things follow similar pathways in development so it is not just a case of natural selection selecting out certain traits blindly but it is inevitable that only certain traits will always be produced. So it's not a coincident at all but living things following pre-existing development patterns that evolve along similar paths.