Both the campuses are more or less same, people giving a little edge to Goa over Hyderabad as it is older and more number of companies come to recruit students. As far as CS vs ECE goes, it comes down to your interest. Both of these branches are future-proof with ample opportunities. Electrical fields are generally harder than CS and require a little bit of hard work as well.
Goa campus is more recognised for it being a entrepreneurship hub whereas Hyderabad for being a tech-hub.