Anyone who has read comics for any length of time comes across them. Things that just make you scratch your head and ask why. I am not talking about big things like why doesn't so and so just kill that villain or why don't they join that team. I am talking little things that when you think about it make no sense.
For me it is why do the Inhumans wear masks? Marvel has gotten better about it since the recent Inhumans push, but in the past it was just weird always seeing them wear masks even when they were just around Attilan. Black Bolt especially always wearing that full head mask makes absolutely no sense unless they have changed it and it something he has to wear around.
Everyone has got something go ahead and tell us what confuses you.