Nope, if you have disabled the app, it then dosnt get updates. What i have disabled is system apps, like YouTube, so it is something in the rom who watch these.
I had this problem for several days when my Z6 was new. Seems to be something not working correctly at first on new phones. I had started trying to track down what was causing it, when the problem disappeared without me doing anything. So keep disabling those apps, and eventually it will stick. There is a thread about this on XDA also, several people have had this problem.
Please list the apps affected by the issue, and your firmware version and I'll pass the log along. Is it just YouTube and Google Photos that you are having issues with re-enabling and auto-updating?