Looks like some polish has been removed. This happened to me on a pair of new shoes. I wore them for the first time and ended up splashing them with water. When I wiped them, a good amount of polish came off. I hit the whole shoe (both of them) with some neutral shoe cream and it did re-distribute some polish and even them out. Then 2 coats of wax. I don't wear a new pair of calf shoes without a coat of wax on them anymore.
If you only tried spot cleaning that, then you may not get anywhere. Try treating the whole boot and see if it will even out. Make sure whatever you do to one you do to the other boot.
Thanks! I just ordered a thing of Alden Neutral Shoe Cream and also a bottle of the Leather Defender, so I plan to polish them using the shoe cream then apply the defender. Is that how I should do it?