Best way to stop startup services from starting is with autostarts it allows you to enable the functions based on application. Such as disable adfree from starting after startup. It lists what things cause applications to auto start and gives you the ability to disable that action.
You can use ES file explorer in place of root explorer. It had too functionality as well as many other functions.
you could also do like me and instead of renaming the apps, just move them to a different directory.