Sometimes when Skyline abruptly exits like that, then the next time that you open Skyline it shows you an error message and gives you the opportunity to send us an error report. You would not happen to be seeing anything like that?
Alternatively, it might be necessary for you to send us your files so that we can try to reproduce this problem.
I am not sure exactly which files we need-- probably we would need your Skyline document and one or more of your Bruker .d data folders.
In Skyline you can use the menu item:
File > Share
to create a .zip file containing your Skyline document and supporting files including extracted chromatograms and spectral libraries.
You should send us that .zip file, and you should also zip up one or more of the .d data folders that you are having trouble importing results from.
You can upload those files here: