I have not encountered .DS_Store files enough for them to annoy me, but the same design flaw works itself into my life almost every day, in the form of zip files. When zipping files on OSX, the common way is to right click on your directory of choice in Finder and select “Archive as…”. This creates a Zip file, with the unwanted addition of a _macosx folder. According to this [1] article, the folder is used for thumbn…
Asepsis http://asepsis.binaryage.com/
Asepsis is a system utility for prevention of .DS_Store files