Paint Discolorations

So, I have this relatively new Acura TSX, Meteor Silver (which is a light blue with fleck of silver).



After camping out on this forum, I decided I wanted to apply some sort of polymer-based protection to it. I ordered the Klasse kit, and clayed the car last weekend (very good advice from posters here - there was all this fine dust that I could neither see nor remove with a good washing - despite the newness of the car).



I've noticed at one or two points on the car, a kind of discoloration. There are spots of paint that are a much darker blue than the rest of the car. I went over all those spots with a claybar, and then went over them again when I applied Klasse AIO to the car. Yet, the color spots are still there.



After the claying and AIO (as well as my first coat of SG) the car is smooth as glass. And, when I run my hand over the discolorations, it also feels very smooth.



Any idea what could cause a problem like that?



P.S. Have I mentioned before how grateful I am for all the wonderful advice I have been getting here?
 
I think some pictures would help us diagnose the problem better. In any case, given the newness of the car and if they are that easily identifiable, I would take it back to the dealer and have an independent body shop look at it and then decide the best course of action.
 
My car has slight varations in shade just like you mention on your car. If they are that noticeable, you should take the car back to the dealer and see what they will do. I have found that on my car, I am the only person that sees the differences in the paint, and it would be fruitless to pursue the issue with a dealer. Not even my wife, who is almost as anal as I am can see what I am talking about.
 
I'll try to take some photos. The problem is fairly noticable in terms of color, but not size. The difference between the discolorations and the actual paint color is quite significant, it is just that the spots themselves are quite tiny. Basically, there are a series of five to six dots, about a pencil point thick, on the hood and on the side of the car. The dots are a MUCH darker blue than the rest of the car.
 
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