Embedded Linux based devices often require a mechanism to update applications and system files. For example, a (non-networked) lab instrument with a USB port can get software updates from a USB stick.
It would be a simple matter to run a script to copy files into place on the device's internal flash memory. However, there is the danger that the device would lose power in the middle of the update, and end up a brick.
The situation for application files is a bit easier since there is room to duplicate the application directory, update one copy, and quickly swap old and new directories minimizing the failure window.
Things are dicier for kernel and system files since they are spread out throughout the file system.
We have used hard and soft links in the file system to identify critical files. We use hashes on files and archives to verify file integrity. We have considered using an emergency ramfs in the kernel to provide a fallback if starting from the updated file system fails.
What are your approaches to this requirement?