It appeared afterwards that the duke had sworn that if they had not washed him as they had Don Quixote he would have punished them for their impudence, which they adroitly atoned for by soaping him as well.
There are no more uses of "atone" in the book.
Show samples from other sources
To atone for sins is a common religious theme.
Approved forms of faith, practice, and conduct were laid down as consistent with orthodoxy, and deviation from these standards had to be confessed and atoned for by a prescribed form of penance.
Dictionary of the History of Ideas -- http://etext.lib.virginia.edu/cgi-local/DHI/dhi.cgi?id=dv1-50(retrieved 05/20/06)