Master of Technology [M.Tech] (Computer Science and Engineering) From IIT Hyderabad, Hyderabad

Here is a comparison of IIT Hyderabad CSE and IIT Guwahati based on some common parameters.

• Campus: IIT Guwahati has a much better campus than IIT Hyderabad as the latter is still in its construction phase. 
• NIRF Ranking: IIT Hyderabad Overall ranking by NIRF is 14 out of 200 colleges in India in 2022 while IIT Guwahati Overall ranking by NIRF is 8 out of 200 colleges in India in 2022.
• Faculty: The CSE department of IIT Guwahati has a higher number of faculty members than IIT Hyderabad. Faculty members at IIT Hyderabad are young and dynamic, always ready to explore new ideas. They also frequently change the pedagogy style to break the monotony and keep up with the recent trends. IIT Guwahati is quite lacking in this aspect. 
• Locational advantage: Being located in close proximity to the IT hub, IIT Hyderabad offers a huge locational advantage thus increasing exposure through invited talks and collaborations with industry experts in IIT Hyderabad.
• Research: As far as the research is concerned, IIT Hyderabad clearly is the winner here. The CSE department of IIT Hyderabad has many better-ranked papers in comparison to the CSE department of IIT Guwahati. 
• Computing facilities: IIT Hyderabad's computing facilities are great.

Sparing the campus issue, CSE from IIT Hyderabad seems to be a better option than CSE from IIT Guwahati.

Assuming that you are research-oriented, I suggest you choose IIT Guwahati MTech in theoretical CS rather than MTech in CSE from IIT Hyderabad. From the choice of your research-related subjects, theoretical CS seems to be the best option. Moreover, the Mathematics and Computer Science department of IIT Guwahati is extremely good with a knowledgeable faculty base.

MTech at IIT Hyderabad on the other hand is more focused on campus-related work rather than actual theoretical knowledge of the subjects. 

It’s important to check if the research interests of the faculty align with your subject interests.

Before I begin, let me clear the misconception that the 3-year MTech program is inferior in quality to the 2-year MTech program. Because of this false assumption, the higher ranking MTech students tend to choose the 2-year MTech programs instead of the 3-year program.

Similarity

• In reality, the credibility of the degree you are awarded and the credits requirement of both programs are equal. 

Differences

• The difference is that you will have to invest more time in your RA (research assistantship) duties. 3 year MTech is funded from research projects so you will be working on research projects quite early. 3 years are more than enough to get publications with the right determination and hard work. This is extremely beneficial for higher studies as well as making the most out of your skills.

Both IIT Hyderabad and IIT Bombay offer 3-year MTech programs. There may be some other IITs as well offering similar programs.

Between BITS and IIT Hyderabad, I think the latter is a better option from a research point of view. Additionally, IIT Hyderabad also has a locational advantage, better connectivity, industry, expert interactions, etc.