There is an option for alphabetical sorting with Vuhdo.
Have not used the addon yet, but I remember someone saying you could sort this way.

You can look at window positions, in the configuration file for Vuhdo.
Most addons are.. WTF >> Account >> Account Name >> Saved Variables >> Addon.Lua

With most addons, you can copy (from the configured folder) and paste into the folder you want to apply settings to.