I think the extra levels of mapping, that are revealed with deeper probing of the texts wouldn't be shown directly with the automap, but just the actual layout as you explore it would be useful to keep your direction and not get lost. I guess it depends on your sense of spatial awareness and ability to visualise the landscape you're slowly uncovering, but if you can explore around and lay down a structure you can see mapped out, you have a better chance of getting to the places you have to pay special attention to. I'm not really sure how you would then map out special cases as such, but I'm not sure the map itself would be the best place to show these specialities. If descending into a well, or climbing a set of ladders that were hidden, takes you to a totally new map to uncover using standard movement (n,s,e,w) then so be it. Its not really to map out every thing available, just more of a guide, that you uncover and explore yourself, and just saves you getting tied up in mental spatial reasoning knots, when you're constantly circling around areas without much of a clue of the overall lay of the land.
If I get totally mixed up, I have to draw it down, so I can start to tackle the more cerebral problems of working out the puzzles and problems contained within the descriptions and items around. Its the drawing of the layout, that you've navigated with movement commands already, that seems to take some of the fun out of it for me, if that could be presented "as you explore it", and make a record of it, then you can focus on the more interesting aspects to the storyline/quests and puzzles. Rather than re-doing something the builder has already done.
I can see both sides to the argument, because you don't want to totally out all the secret locations, or place legends with information and what not on screen, but also I see and experience the sometimes bewildering mental visualisations you have to try and make just to get to a particular location you've already found, and you now can't physically remember how to get back to, because you have no visusal representation other than the one you're conjuring in your mind. I'd prefer to use my imagination to make the textual descriptions bring the world to life, than to spend valuable brain power, piecing together and remembering a room layout.