I am from ece background will I face any trouble in coping with the curriculum.

M.tech computer science is something which is more of couse work and a little bit of research work. What is means is that you won't be the one coming up with problems,  but your professor might aid you in reaching a problem and you would be solving it. 

If you are interested in Embedded systems, Automata , NLP, compiler design then you shpuld go for IIT KGP. It is the best course offered compared to other IITs.

IIT Kharagpur invites the best recruiteers in the market during placement such as core engineering, IT, finance, consulting , Automobiles, PSUs, etc. Almost all students successfully gets placed in domain of their choice. The placements trend have shown the flexibility in their curriculum which makes students fir in any sector. Students are universally compatible to take up challenges in any sector because of the flexible curriculum.

Hope it would help.