1. That's cleared up then.
2. Probably, yes.
3. Third party applications are typically installed on the SD card and don't go on the flash of the DR1000. When you replace or install stuff to the internal flash, you can easily restore the original software by installing a firmware update. You can do this by copying the update to an SD-card and pressing the reset button. That should always work. It replaces everything on the internal flash. As a result you may need to re-install 3rd party applications afterwards.
As for documentation, iOn provides this guide for development purposes:
http://developer.irexnet.com/pub/iOn...nvironment.pdf