So the question was:
And Chanakya concedes that I never claimed there were any such examples. However here is an example I know of:
Background, Ernst May in his 1961 essay "Cause and effect in biology" in Science
pointed out that the conceptions of causality found in mainstream philosophy and he set out the ways that causality operates in biology, in particular that biology describes two kinds of causes, the proximate and the ultimate and that research will focus on one or the other and that it is a mistake to conflate the two.
Kevin Laland wrote a paper in 2011, also in Science
called "Cause and Effect in Biology Revisited: Is Mayr’s Proximate-Ultimate Dichotomy Still Useful?"
In this he points out that this distinction does not necessary hold for certain kinds of research:
Cultural learning is the focus of one of his own hypotheses and he has described this and the series of experiments he undertook to support it in his book "Darwin's Unfinished Symphony".
Briefly his hypothesis is that the cultural behaviours of teaching and learning influenced the late stage human evolution and that these evolved from earlier copying behaviours in which the copying had evolved to become more and more precise. He has also hypothesised that the difference between human teaching and learning behaviour and that of our closest relatives is that we can successfully employ co-operation in learning.
So here we have a case where a scientist has argued the need for a science philosophic concept to be updated in order for certain kinds of hypotheses to be made and also has been the author of one such hypothesis.