The editor...needs work. The switch in your profile is there if it gives you problems. Pasting content from Word is the surest way to break it. I've tried enabling the functions in the editor that are supposed to clean up the garbage, but they don't seem to work consistently. The next step is for me to clean it up manually, and that would be a sizable undertaking.
I wasn't aware that link HTML was being generated multiple times though. The editor is generating a series of anchors embedded within one another, which is odd. I've placed this at the top of the bug list.