BITS Goa offers you more in terms of personality development. There are more chances of meeting/networking with people of other states/cultures than in Hyderabad which is the key for your overall personality development.
Academics wide, both should be the same. It purely depends on how much effort you put in.
BITS Goa has been in the system for a decade now (4 years more than Hyd), so the infrastructure and other setup would be standardized and stable now compared to BITS Hyd