Our lab has based the opposing model with a poured working model a few times, but that would only be done if our dies are not scanning in accurately. In short, yes there are some situations where you gotta do what you gotta do
I prefer a solid model and a separate printed die. There are options for some fancy bases in the 3 shape model library but I don't personally use them. I have tried printing the Hellen Keller models with the removable dies but they are not as accurate for checking contacts as the dies have some play in them.