> I don't fully understand the editor
Going vanilla will not help you there - well, not completely anyway. Moreover, it may even obscure some features that were easily accesible before.
> I don't fully appreciate the difference between what comes in as part of vanilla Emacs and as a Doom feature
That is not very difficult - learn how to use built-in features - profiler, edebug, describe-, apropos-, hooks and advising, etc.; Start writing Elisp code (with understanding it). In the end, it won't really matter - whatever runs in your Emacs, there's always a way to get to the source. And if you ever need to disable any feature of Doom - there are multiple ways to do that.