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I've had a few issues with sd card corruption over the years, so I wrote a script to mount a local ssh server then backup the whole sd card to it as an .img each day.
Then whenever I have an issue (even just my own stupidity) all I've gotta do is pull the sd card and write the latest .img to it.
Single backup? Ie overwriting the previous backup? Maybe you didn't get to restoring it until after it had backed up the broken files.
Multiple backups over days helps. I keep a weeks worth of daily backups in case I miss the issue for a while. The script appends the date to the filename.