Hii aspirants 

Let me clarify you that you can go for any of the two courses. Both are unique at its level. So you can go for the field in which you are interested to pursue your education. If you want to go for agriculture engineering then no. of vacancies are there. And if you do masters from IIT college then you will get job with very good package  in FMCG bussiness

But If you go for dairy technology you have to study dairy technology, dairy chemistry, dairy microbiology, dairy engineering and dairy bussiness management. So after B. Tech you will be eligible for any food industry but if you do M.Tech you would get good package.

So go according to your interest. 

I hope my answer will help you out

Good luck