I don't think anyone relies on a truly "automated" method - it's more art than science. You have to look at what's going on and running on each PC, then choose your weapon.
Having said that, MalwareByte's Anti-Malware has fixed everything I've seen in the last 1.5 years, except for two things. I ALWASYS run it first after killing off suspicious processes and/or booting to safe mode if required. It's "automated", works great, is free and hasn't screwed up one PC yet.
Plus it hardly ever crashes if the computer is half-way stable.
Then using a combination of Autoruns, RootRepeal, GMER, RogueFix, etc., etc., you have to roll with the punches for the really weird/persistent stuff. I'd throw in ComboFix, but it sort of does it's own thing and you don't have much control over what it does, so BIG caution flag there about running it on every PC as standard procedure.
Bottom line - every PC is different. Different hardware, software and malware running on it. Some are just tougher to fight than others. But having a standard procedure (cleaning out temp files, looking at startup items, running your favorite anti-malware) is what I do on EVERY PC. Then I start to see if anything else is lurking or tyring to reinstall itself.
If you're so confident of your methods, please write up a White Paper for all of us. I'd read it.