Like others have said it's certainly possible to have a 2E child, one that might have some delays/learn disability but is also gifted. Others have already addressed that well so I won't touch on this further.

However, I'm curious about your DD6, why did you think she might have autism initially? Are you certain she does not have Aspergers now? Like your son she could be 2E (and since you're seeing this in your son I thought it was important to ask), so it might at least be worth looking into. Feel free to ignore this if she isn't showing any symptoms but since you mentioned that I felt it was worth discussing.