The problem is when you try to unscrew the crank bolt, it will hit the "extractor" unevenly, and could cause the threads to pop.
If you remove the "extractor", and use a normal crank remover, either it will go in crooked, or the threads will be stripped, and it won't work properly.
I have troubles imagining a company could do precision machining, and get the threads crooked. But, they could potentially have forced a cross-threaded part in at the factory.
I have a lot of tolerance, but that one would bother me for the next time you have to do maintenance on the crankset or bottom bracket. Or the second or third maintenance cycle.