For me it really depends on the use-case. A lot of times I want persistence but don’t really care to access the data outside of the container. So rather than using the extra brainpower to make up folders myself and ensure paths don’t change I just let Docker handle those details for me. Also I use Podman a fair amount and it seems to be more troublesome when it comes to bind mounts.

I probably made a small mistake in setting that up but I tried making the dedicated “home movies” folder and it wouldn’t show my videos.

Only issues I’ve had with Jellyfin are reduced flexibility in naming/organizing files and inability (for me at least) to detect personal media.