It's my recommendation to run the quick scan first (4~22 min) then the full scan (90~180 min). I've encountered malware, especially the sophistocated scareware, that can mask files from scanners. I've found it best to run the quick scan to knock out the heavy-duty nasties, then the full scan. I've never encountered an instance where Malwarebytes found anything after a quick 'n' full combo.
I try to run Malwarebytes quick scans every week, and a full scan once a month. I recommend installing Spybot Search & Destroy. The spyware scanner doesn't do much for me but the browser immunizations, as far as I know, are useful (no proof).
The ultimate protection against such things from happening is to run your browser through Sandboxie. Applications are run in a virtual space, and then Sandboxie kills all processes and can even be set to delete the virtual space! Sandboxie is literally a condom for your computer. Do the nasty with all those sites that claim to be clean, tie it off and throw away.
Malwarebytes Anti-Malware Scanner
Malwarebytes.org
Download Malwarebytes Anti-Malware 1.41 - FileHippo.com
Spybot Search & Destroy
The home of Spybot-S&D!
Download Spybot Search & Destroy 1.6.2 - FileHippo.com
Sandboxie
Sandboxie - Sandbox software for application isolation and secure Web browsing
Download Sandboxie 3.38 - FileHippo.com