Yes, there was. There is clear evidence of a medieval urban nucleus in the modern city of Bani Suwayf (or Beni Suef and a multitude of different transliterations). Unfortunately, I have not been able to find the medieval name of the city, and as such it is represented by its modern name. In any case, it was rather small, but a relatively important economic centre none the less.
It certainly was. Asyut was an important city during Ptolemaic and Roman times, but quickly lost importance when the Muslims took over, who gave preference to other settlements (like Minya). Indeed, until the 19th century, Asyut remained a backwards town, growing exponentially again when it became an industrial centre. Minya, on the other hand, was one of the largest and most important cities of Upper Egypt during the Middle Ages. Indeed, the famous 14th century Andalusian traveller Ibn Battuta claimed that it was superior to all other towns in Upper Egypt, and many contemporary (and earlier) Muslims joined him in this opinion (though according to my research, Qift was more important in the centuries before Ibn Battuta's life). Comparison of the satellite imagery of the medieval towns of Asyut and Minya also show that Minya was much larger.
Correct, it's not in. Unfortunately, it could not fit on the map because it's too close to Qift. If we had had the space, we would have included Qus, but as Qift was more important than Qus until at least the 14th century (and probably up to the 16th century) we had to give Qift priority.
I haven't been able to finish my revision of the Arabian peninsula yet, so it will feature at the very end of this series of previews. You'll have to wait, but it's going to be awesome