Shoving an unneeded messenger app down the throat of your entire user base is a guaranteed way to upset people and leave them feeling disillusioned, asking questions like “why do I suddenly need this?
The feature deprecation may be more of a hassle, however, as Facebook users will have to exit the main app and open Messenger to chat and read posts on their timeline. Alternatively, multitasking ...
If you have SP1 installed, you can just uninstall messenger from 'Add and Remove Windows Components' . This is found at the start menu > 'Set Program Access and Defaults'.