"Thinking machines" or not, the problem in our universe and Dune's (IIRC) is/was powerful people using these tools to subjugate others, not that they went full Matrix. I think the 6th book might hint at this possible future, as well as God Emperor (my memory fails me though, but Leto II is trying to prevent total human extermination through almost omniscient surveillance and control, which could point towards AI), but the main problem is the same as it was so idk if we're living through Dune or just the human experience. 🙃