Listen, when it comes to my iPhone... the App Store is fucking unstoppable. I LOVE not having to worry about having the latest updates for my mobile apps (gosh, I remember those Windows Mobile days.. what a nightmare!).
When it comes to my Windows PC, they can pry my portable software from my cold, dead, and decomposing hands. After 20 years, I believe I have perfected my data setup.
C:\ - System drive only
D:\ - Data drive (Applications for music, music, movies etc)
I make a tuned but 'clean' copy of Windows and back it up with Acronis TrueImage every time a new major version of Windows comes out (10, anniversary edition, etc). I store everything on D:\Applications, and 98% of my apps are portable so if I lose the system, my data is complete
If my system gets a virus or corrupted, I restore the acronis image. If I get crytolockered, my bitlockered drive has a monthly backup of everything.
If my entire system catches on fire, I have an emergency offsite drive that stores everything as a 3 month backup.
The app store interferes with this system. Also, a lot of of my older windows apps are no longer maintained, so they will never go on a app store.