Both the IIITs are among the newly established IIITs which still have a long way to achieve the same level of big IIITs like Hyderabad. I have friends from both of these institutes who are currently pursuing their B.Tech.
According to them, both the colleges offer good quality education and compares neck to neck. Here’s how:
Overall, both of the IIITs are new and struggling with a lot of factors like placements, lacking coding culture and facilities. Nevertheless, IIIT Guwahati has a slight edge over Kota because of its permanent campus if the location is not a problem for you. However, better not to opt for either of these colleges unless you have a JEE rank between 15–25k, and don’t have greater options nearby.