Which episode are you up to? DD is watching this at the minute and I catch a few episodes - I think we are at the end of season one / start of season 2. I don't recall this one though and he hasn't had a girlfriend yet, so you must be further on than us.
In which case you will know that:
a) his colleagues help him to understand boundaries and he often asks whether things are appropriate and learns from it - sometimes very poignantly (like the cancer patient who helped him to understand that it was OK to tell white lies sometimes if it helps people and doesn't harm them)
b) The reason he hasn't been put right is that the character is from an abusive household, ran away with his brother, saw his brother die and then grew up moving from foster home to foster home and school to school, so no-one has ever been in his life consistently enough throughout his adolescence for him to learn about a lot of social norms.
From the episodes that I've seen, I suspect that when he is doing those things, his colleagues pull him up on it and that he will learn from it and take it forward.
It absolutely does matter how autism is brought to the general public, and even though it is highly fictionalised, it is good to see someone with autism being shown as a doctor.
Someone up the thread said in real life he would never have got into medical school because he wouldn't pass the interview - and that is the real issue - maybe not medical school, but how many autistic people there are out there who are highly intelligent but struggle with social norms and therefore can't get into fields of work they excel at.
I've said a number of times while we've been watching it that I would love someone like Sean to be my doctor - no non-sense or fluff, straight to the point and damn good at what he does!
We used to have a GP like that - not autistic, but German. So many people avoided her if they could, but I always requested her if she was available!