Its really easy, i’ve done it in production for a large corporation. Thats also how Financial Times updates their webapp inside their native wrapper.
- develop as usual
- use grunt-manifest to automate creating an appcache manifest file
- point index.html to remote host instead of local machine, place all assets on remote host
on first launch, the app will download the app remotely and as soon as you update one of the files on the remote server, it will be updated in the webapp. boom - store-independent, realtime native app updates.