I have the free version also, and kept getting this message
all the time too. Very annoying.
I found that after you run a scan, with the free version, you
can go into the system tray, enter on Malware Bites and arrow down to the ‘quit
Malware Bites’ option and enter on it. This will remove it from the system
tray temporarily and the announcement will not come up again until you run
another scan.
You will have to go through these steps after every time you
run a scan manually.
I only run a scan about once a week, so not a big deal to go
into the system tray and do this.
I don’t think it would work with the paid version, as it is
always running with real time protection.