How do I transfer app data from my old iPad to my new iPad?
I am assuming this process will work out to be the same as the current situation with  iPhones:


Backup your iPad using iTunes.
Plug new iPad into same computer.
Restore new iPad from old iPad backup.


When this is done with an iPhone, the new iPhone will be configured exactly as the old one - save games, email apps, photos, everything is transfered.

What happens is actually that the backup contains all app data + configuration. The rest is basically a list of stuff that should be synced from your computer to the device (e.g. music, photos, apps).