I have absolutely no dockers running, but I would like to create one now.  My understanding is that the Docker configuration is a bit different in 6.2.  How can I create my Dockers today in 6.1 to be the most compatible once 6.2 is released? In terms of directory structure, placement, etc.

There's no fundamental difference between 6.2 and 6.1  The only difference is that 6.2 has a default appdata share that you can set whereas 6.1 doesn't.  However you set up your folders will be compatible with both ie:  a cache-only appdata share, ideally in your templates map the /config folder to /mnt/cache/appdata/... and not /mnt/user/appdata/...