There is an issue on which applying a hunk update (remove and add lines) eats a newline to the update so #12 was unnecessary and those files were probably fine. Will investigate.
Might be related to #5
Fixed by #3EAIT2277UKYK2SGAWNR4GRP3IIJGMH6ANJ3JGBZMKNYRW7OOCVQC
There is an issue on which applying a hunk update (remove and add lines) eats a newline to the update so #12 was unnecessary and those files were probably fine. Will investigate.