I have not used Malware Bytes, so I can't comment on it. I have been using a product called Advanced SystemCare by IOBit that I like, though. It's got a 1-click "Quick Care" that does malware removal, registry scan, shortcut fix, erase privacy history, and empty junk files. It also has a more thorough 1-click option called "Deep Care" that does everything Quick Care does, plus a Windows vulnerability check, optimization, disk scan, registry defrag, and disk defrag if needed. All of that is included in the free version. I recently purchased a 1-year license for the Pro version that only cost about $13.
For deep cleaning I use CCleaner. It's free, it can delete anything on your computer (including your entire drive if you wish), and you can set it delete up to 35 passes.