To protect myself from any of these occurrences, I keep regular backups. I take these backups at a frequency similar to the amount of data I am willing to lose in the event of any failure (including "evil" actions on behalf of my OS vendor.) For me the frequency of backups is generally daily.
Note that I use the term OS vendor instead of Microsoft here, this because I run several computers with several operating systems (Microsoft, Linux(s), others) and I have had them all screw up a patch.
Since I have chosen not to write or personally review the source code for all the software I use (because I don't have that kind of time), I choose to outsource that work to several vendors, one of which is Microsoft. Yes, there are risks to running software from Microsoft (or any other vendor), Microsoft may not have my best interests in mind. However their software meets my needs and I have made the calculation that the value the software provides outweighs the risks.