Atom freezes frequently on El Capitan 10.11.3. When this happens I see that Atom Helper is spiking. It’s so bad I can no longer use Atom.
I’m not experiencing this. Did you try Atom in safe mode?
Maybe one of my plugins is causing the problem.
It’s quite possible. If you run Atom in Safe Mode, it doesn’t load any community packages (among other things) so you can see how Atom operates without them easily.