An MSc. from CFTRI Mysore is considered to be one of the best for food technology in India. It has been the pioneer in providing quality education in food. But you need to keep in mind that it is a government institution. Therefore it has its own limitations, in terms of research, funds and several other things.
On the other hand if you choose to go abroad, your guide has full autonomy for the funds. They take the responsibility of spending the money and what projects to pursue or not. It is known that colleges abroad have better facilities and better working conditions. Indian institutes lack this although they have state of the art facilities but they are of no match for the colleges abroad.
Also, the hard work you will put in to get into CFTRI is much more than getting admission in any college abroad. They also provide better returns. If your financial background is good you can then choose to go abroad rather than studying in India.