Wineskin isn't supported here... but... Wineskin 2.1 hard links these folders on every run. This is because its all customized to be a single app thats usable by multiple users and movable from machine to machine... it cannot work like normal Wine in that regard. I have added in to make that optional in a 2.1.1 update that I'll have out hopefully later today or tomorrow though, doing a few more things before releasing it.
