Car is in color!!!!!!!!!!!!!

You may want to wait and see what AdamR has to say on the tip to spray your clear through or another tech, But if I remember right I shot my clear through a 2.0 tip.
And on the area's you found that did not get fixed see if you can block them out with water and sand paper and see if it will fill with the paint you have on it already.
Keep us updated and good luck on it, I think I would put my last coat of clear on with a bit more air pressure and keep the gun level with your surface about 7 to 8 inches away.
I have not painted in a long time so I hope I am not steering you wrong.