What should I choose, NSUT Electrical or IIT Kharagpur Food and agriculture Engineering?

For your information, the Agriculture Department of IIT Kharagpur itself is around 300 acres whereas the entire IIT Delhi is sightless less than 400 acres. The huge area of IIT KGP is definitely not a boon and might actually work against you. Moreover, it’s not a brainer that Electrical Engineering seems to be a better option than Agriculture Engineering unless you have an interest in the latter. NSUT itself is a pretty decent institute and is much in demand because of its central location. 

In short, I recommend you to join IIT Kharagpur (Agriculture) only under 2 circumstances,

• You are genuinely interested in the field and want it to pursue a career in the same
• You want to pursue higher studies in foreign studies. 

For this, the IIT tag will be much more useful than NSUT. The entire answer is based on my opinion only and not on any data.