Since hydrogen was added every time I start atom, the dialog to install hydrogen is presented. The hydrogen package is installed and up to date.
I've tried deleting the hydrogen package and letting it be re-installed. That didn't change the behavior.
I've tried deleting the pythonic-atom package and re-installing it. Again, no change. The dialog is still presented.
This is a annoyance rather than a "block me using atom" issue.