When it was new, it was like a new toy - you want to take it out and play with it aas much as you can - showing off the latest developments, but if its costly, as it was, then you confine it to sections of the movie that would either benefit from it visually or make sense cost-wise or show off the new technology in a way that did not look as good or was always very hard to achieve traditionally.
I notice you picked out all of the scenes that have non organic parts animated in them,: early CGI was ideal for that sort of animation, whereas to be done by hand, and look convincingly solid, would have been harder.
By comparison, to do characters, like faces, was incredibly hard to do in CGI and very expensive and time consuming to match traditional hand drawn techniques, so those parts took a alonglong time to develop,.
Especially with hard surface body objects, in this case a door with moving parts, it can be easier for an animator to reference the animation timing, positions and angles if they have a physical guide to work from (Toy Story, 1993-1995 would use physical clay models as the basis of their models, for example). If it was made in 3D for that as a guide, they may have thought: we are on a tight schedule, tight budget, effectively the door animation now exists, lets just use that and move on with other more labor-intensive tasks. It would certainly not be unreasonable to consider that - corner cutting where you can is pretty standard.
Alternatively, but closely related, it may have been part of the animatic - preproduction in animation is perhaps even more important than in live-action: you want to get all the timing and layout correct before production so that no frames and no time or labor and therefore money is wasted, and so an animatic is produced that sits in-between the process of storyboarding and actual production of the final frames, sort of a low-resolution, rough-looking, version of the final film. And again, perhaps to save time and money they dropped it in.
The other option is that it was identified early on as something to animate in 3D, to relieve the animators, but there was not enough time (or money) to render it properly. Elsewhere there are references to having a very small budget on a very tight schedule and wishing to do parts in 3D because doing it by hand was such a nightmare and would have been much easier to produce if it had been in 3D, but they were not able to.