Sorry for the delay, busy couple of days at work. As far as the logged in thing goes, you'll need to check the little box that says "Stay logged in" when you first log in, that will hopefully keep you from being bounced. CloudFlare seems to have something that affects user sessions but that solved it for me, so hopefully it helps you also.
As for the notification thing, let's try and figure that out. The box you check or uncheck just stops the little box from appearing at the bottom of the screen, so it sounds like you're having a different issue. I'm thinking you might be referring to the "Alerts" section. Is that correct? I'm just trying to figure out what the issue is as it sounds like it's either that, or you might be being bombarded with emails or something that's obviously causing a problem. So let me know and we'll figure it out.