Please look at the screenshot below. The folder is still there and I haven't touched it since yesterday. I was still able to compile the project yesterday as well. I opened my Intel XDK today and this shows up.
I followed the instruction and open the xdk file again but this shows up instead.
I already tried to export the project again but nothing works.
Also, not sure if it's directly related. The "www" folder created like more than 100 "www" subfolders and I cannot even delete the root folder now cause path name is too long.