It's a big deal because there's no rhyme or reason why it's one way or another way in different series so when you ask your TV through voice command to "Play Season 3 Episode 2 of [Show] through Plex] and then your TV plays the wrong episode it becomes a big deal.
Use your remote or organize your files accordingly such that the integration works
You are not listening. There is no way to make it work properly all the time.
Use remote and put everything in other, it will use your file directory organization. People, man.
It's really not a Plex problem, it's an "Internet TV metadata" problem