Logical changes aren't necessarily partitioned by file. Very often I find they are not. I might make a feature or fix or cleanup that is say 10 related changes that each affect some subset of say half a dozen files, often even the same code multiple times.

Adding individual files can help partition out some changes, but it's very rare for me, it's much more often I have to go back and manually shuffle sub-file changes around if I didn't get the splits right the first time.