That's pretty much the entire argument behind security, in computers or otherwise. Security features reduce yout ability to do what you want on your device.

(And it's not just an abstract "what if I want to shoot my own foot off" issue. Consider e.g. sandboxing, which by its very nature kills interoperability. In a non-sandboxed environment, you can write code that forces two applications to interoperate, whether their authors like it or not. In a sandboxed environment, you're limited to what vendors allow you.)