Engineering Science at IISER Bhopal is a much newer course and it is more like B.Sc. and M.Sc. courses. It is a research-oriented course and not job-oriented like B.Tech. The course links engineering with research. You will get hands-on experience along with theoretical knowledge.
Engineering Science is offered under 3 different specializations - Chemical, Electrical, and Computer science. If you want to do research after your MS, then it is a good option.
The only hiccup is that this course is still new at IISER Bhopal and placement opportunities will be less. You may have to struggle for it as BS and MS in Engineering Sciences is not considered reliable options.