Yikes. Sorry to hear that!
First, try to run Safe Mode. It loads Atom without your packages and config. This can help you understand if it’s caused by Atom or one of your packages.
After that, if I were in your shoes, I would backup my ~/.atom directory and then wipe out Atom completely. Maybe you missed some files that Atom keeps on your computer. Try to download and install again and then run fresh to see if the issue is still there. If it’s not, I would reference my old config and setup Atom again.