SAME ISSUE HERE . . . WITH THE LATEST VERSION
Yesterday I bought and installed a '2 year/2 PC' license for MalwareBytes Premium 3.0. I installed it on a desktop and a Laptop, both fairly new and running Windows 10. They were both previously running Vipre Internet Security 2016, which had just expired. I removed the Vipre and restarted each PC beforehand. I also removed all traces of Vipre in the file system, ProgramData, AppData, and Registry before installing the new malware duo.
I installed the free version of Avast Anti-virus as well as MalwareBytes Version 3.0.5.1299 on each computer, in that order. I Rebooted between each install.
The desktop is working perfectly, but the laptop has the issue where upon startup it reports "Real-time protection layers turned off", and at first I can see that the "Web Protection" is OFF briefly, but then "Web Protection" is On, but the message stays put. This is just an annoyance, but I wanted to be sure to report it so MalwareBytes will see it is still an issue with the latest version. Both PC's are running virtually identical software. There is no malware on either machine.
I tried removing both Avast and MalwareBytes. Then I ran the MalwareBytes 2.x removal tool followed by removing all traces of MalwareBytes and Avast in the file system, ProgramData, AppData, and Registry before installing the new malware duo again. Still the same problem. The laptop is an HP Omen 15t with Windows 10 (64bit) and all the latest BIOS and drivers from HP for Windows 10.
Not much more I can do.