There's a bug in older patches of the game that makes them not show up again, so it might be that. You can migrate old saves to new patches by copying everything in the saves folder to the new version.
You shouldn't be. Just make sure you're on the latest version, v0.109, keep playing through the game and they should eventually reappear. It takes them a few days to turn up but they should appear.
We've also got another update coming out in a few more days that should help too.
