With each new version of an application there’s the change that configuration files or functionality changes. Packages might even get replaced with others.
Even if this would be true, how would that impact your configuration? It doesn’t full-stop. If you want to access those new features you simply need to check how to activate them in your config file. Or are you making config edits in /etc/ ?!
Your next paragraph I don’t understand, it seems specifically aimed at some kind of self “maintained” script, which as nothing to do with rolling release or distributions.