I noticed this too, kinda weird. I could understand if dev wanted to change the story alittle so Emily wasnt messing around with girls behind mc's back but this is obviously not the case as the startup / dialog is all still there. So why remove the scenes?
Its such a such a shame... I would guess the reason might have been due to some backlash from some people that get personally offended if there's any H scene that doesn't involves the MC, and they see it as NTR ("The word that shall not be named").
I really don't understand this immersion to these VN some people have that they feel cheated themselves over a fictitious, pixeled characters. In my opinion it gives depth to the character, in this VN for example the girl believed she was a lesbian, it gives context to the story... But anyways those scenes are gone and in a way that it happens in the story, there's an introduction to the scene but we just don't get to see it anymore.