I'm fine with it. It makes sense that a 1000-year-old time traveling alien would have technology we don't recognize or understand. It also makes sense that he'd spend time developing better and better models over time.
Over the years, he's wandered around with all sorts of crudely cobbled-together devices. Why not put the best of those into one omnipresent package?
Twenty years ago, I had a bulky cellphone. No one is complaining because now I can take pictures with my latest version. And remotely control other computers. And access the Internet. And predict the weather. And control my TV. And detect radiation.
If anything, the Doctor needs to add holographic communications to the tool and hand out copies to each of his companions.