Atom starts making a folder the subfolder of another existing folder


Thank you for excellent value in Atom!! It is great and I like it very much.

Atom usually opened with the folder I last used, e.g home/james/Docs/W12 These days it makes a folder W12 the subfolder of another, e.g. home/james/Docs/W11/W12 and the it is a battle to get the files I want. After many battles I have found that if I Open folder and I use …/ twice then I get the path home/james/Docs/W12 and all the files I need and work with are there. If I quit, I have to close twice. Is there a way to get Atom to leave this mad way and to resort to the old trusted ways?