Justine doesn't have a specific icon for its logo. Just the text.
But it is often portrayed as a rose.
Oh, and this butthole cave entrance is from the original game. Might be in Justine as well, but if so, it's in both. It's the background when you set your gamma for the first time.
Warning: Spoiler-ish if you haven't played Machine For Pigs.
Spoiler below!
It looks like a very deep illustration. I think it could be Mandus' eye realizing what he's done. You can see they're crying and a tint of blood running down. The reflection from the iris does make it seem like there's a man standing in front of this person, with factory lights around. Perhaps the person in the reflection is the Engineer, seeing as it would reflect a lot more than just visually from Mandus.
Well, If you're talking about the eye lashes, most people do have them both above and below the eyes. I agree it does look slighly deformed, but I still think it's a human eye. It might just be the way it's drawn.