I don't think novice users, who don't understand how code works, should be removing those things.
But they may very well understand the universal idea of plugins fairly well, which could (and do) take over the basic roles of login/logout without getting too much into code, if ever. It's perfectly feasible that a user, once he's taken a day or two to familiarize himself with his blog and different themes he can use, won't dig the ever-present corporate logo right at the top of his page, or the accompanying gray bar. I also mentioned average users, too, who are more apt to desire more control over the look and feel of their blogs. Such users may not know how to disable this hard feature without doing some particular homework. Thankfully, there are plugins available to disable the bar for those who don't want to edit support files, though they are sometimes a little tricky to find.
WordPress walks a fine line, trying to balance 'decisions, not options' with making it 'easier to use with each release.' And I get the impression they feel that 'more options' is not easier. I tend to agree.
Not surprisingly, I don't agree—in all circumstances. I generally prefer having more options with most things in life, not less. Nonetheless, in some cases, less choices are indeed preferred, which is why it's common for software to have "advanced user settings," if so desired. It would be perhaps a good thing to see that implemented. That way there, the tool bar stays, but can be eliminated elegantly, if sought.
I think that customizing the toolbar will always be an advanced skill. And I think it should be. Why? Because you, the advanced user, knows 'If I disable this, I lose functionality, but I can recreate that...'
I generally agree, and with many aspects of WordPress, I think that's a perfectly reasonable way of thinking. We should keep in mind, however, that it was this tightrope act of "balancing decisions with options" that led to creating the admin bar in the first place, which now certainly results in lost functionality, if disabled. Leaving it in place often lends toward redundant functionality, too, depending upon chosen theme and preexisting design schemas, which also can be a little confusing, for both user and admin, I might add.
Anyway, I say 'This is the way WP is going.' becuase that's what I've been told. Liking it is never my point. Accepting it and either learning how to change it, or learning to live with it, IS my point :).
I think I understand you better now. When you wrote, "And that is, has been, and will be the preferred, suggested way to handle this," it sounded like you were speaking from a point of authority on the subject, as if to know what is preferred and suggested.
That aside, there is of course a third option, which is to voice concern over a feature that is causing trouble in the trenches. I absolutely love WordPress and I encourage its development. I don't believe WordPress can possibly handle all user desires, but I do, however, have some opinions about its direction in regard to certain additions, the "toolbar" being one of them, since 3.0.