Looking at the instructions and at your photos, I would say you might have a little oops there. The instructions say to have that basted edge on the front and back of the yoke facing pieces. If I am seeing your picture correctly, it appears you have basted a 1/2″ on the front-yoke and the front-yolk facing pieces. Only the yoke facing pieces (front and back) are to have the 1/2″ basting line. The front and back of the yoke pieces are not stitched with a 1/2 basting line. When you sewed your side seams together, you have taken up a 1/2″ on both the front yoke and the yoke facing. You will want to unpick that part of your side seam and put the yoke front piece free of a 1/2″ turn. Again, this is if I am seeing your pictures correctly.
Once you have just the front-yoke facing pieces 1/2″ basted up, and your side seams stitched, you will match up center front-yoke with center front skirt. then the side seams of the front yoke with the side seams of the skirt. Next you will match up the back edge of the yoke with the edge of the skirt. The front and back yoke facing pieces will be free as you do this. Once that is stitched you will cover over the bodice/skirt seam with the 1/2″ basted yoke facing piece.
Does that help at all?
I hope I have viewed your photos correctly.
Carol