I think the problem is that often the order you want it in a clean history is not exactly the chronological order it was developed. Eg you may build out a featu

I think the problem is that often the order you want it in a clean history is not exactly the chronological order it was developed. Eg you may build out a feature vertically, tweaking the interfaces between the components as you go along. But a clean, atomic git history would probably introduce each component in a finished state in separate commits.