I've found my answer from the AWS guys at AWS Developer Forum. It works great.
The basic steps are:
- Stop the instance
- Detach the Root Volume
- Launch another instance(or if you have one already you can skip this step)
- Attached the Volume in 2 to the new(or already existing other) instance
- Log in into the instance
- Mount the Volume
- Change the folder permissions as appropriate
- Umount the Volume and detach it
- Attach it back to the original instace
- Start the instance and connect