I vaguely recall that people used to get their atari floppies and format in a MSDOS machine as it would yield a slightly bigger capacity - something to do with default format on DOS using more tracks. That was until alternative floppy formatting tools came about on the Atari scene and there was one that was also great for copying discs - going to bug me to recall it's name, but was one of those utils that had a cult rep in its day in atari land.
[EDIT ADD] Ok had a dig around and the tool most used was Fastcopypro - https://sites.google.com/site/stessential/disks-tools, was useful to do fancy formats for extra capacity if you had good quality discs as well as copying/backing up discs
[EDIT ADD] Ok had a dig around and the tool most used was Fastcopypro - https://sites.google.com/site/stessential/disks-tools, was useful to do fancy formats for extra capacity if you had good quality discs as well as copying/backing up discs