Many people would suggest RVCE over MIT mostly because of the quality of faculty members. The faculty for CSE at Manipal Institute of Technology is pretty bad. You have to do all the studying yourself. You can't rely on more than a couple of faculty members for projects. Hence, the institute is not good if you're looking to do a lot of projects.
Since RV College of Engineering is in Bangalore, you are more in the loop and connected to the industry. If you choose to get into research, you have IISc and IIITB situated in the city. If you choose to get a job, there are tons of startups and companies recruiting freshers frequently throughout the year.
If you look at both the colleges with non-academic perspectives, you can feel that RV College of Engineering still has an edge over Manipal Institute of Technology.
If you like the feel of a small town, you might feel better in Manipal as Bangalore is a crowded city with a metropolitan outlook. The choice can be pretty tough while choosing between Manipal Institute of Technology and RV College of Engineering as both the colleges have an extremely good reputation among Indian Engineering colleges.