From TUAW:
- Data encryption
- The ability to flatten PDFs to embed annotations
- Video file can be played using AirPlay
- Symbolic PDF page labels are supported
- Improved compatibility with Google Docs and Apple Preview
Note that this update will take a bit longer than previous ones because GoodReader will need to process all the files that exist in it for data protection.
GoodReader for the iPad is $4.99. An update to the iPhone version, taking that to version 3.6.1, is in the approval process.