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For the portable version, I think it would be nice to have the database file be stored within the portable folder rather than AppData, or at least have it be an option, so that different instances can have different settings.

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The only feasible way to support this is as an advanced option, since changing the default storage location would break backwards compatibility. A new StoragePath setting has been added - by default it still points to the old location (%AppData%).

If you're feeling adventurous, you can override it in appSettings.json (preferably in appSettings.override.json) and set it to . to store everything next to the portable executable.
Just make sure to manually move your existing data from %AppData% to the new folder.

This is considered an expert-only option, so use it at your own risk.

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