MC Launcher not accessing/writing to .minecraft folder but AppData/Roaming instead.

The new MC Launcher released today is NOT accessing/writing to .minecraft folder like it should but is re-downloading everything and dumping it in the AppData/Roaming folder instead. >_<
C:\Users\UserFolder\AppData\Roaming
wheres it should be accessing/writing to
C:\Users\UserFolder\AppData\Roaming\.minecraft

this is a mess... please fix asap..

as a side note I use a NTFS junction point linking .minecraft to a folder on my F storage/gaming HDD drive... this has worked fine through out all the previous version of Minecraft so I do not believe it has anything to do with this issue... though I wanted to mention it anyhow.