You should have a clear idea of what you are going to pursue after the four years. This way you can focus on a particular college accordingly for your undergraduate degree.
The only disadvantage that NIT Calicut has is the weak alumni network due to the newly formed campus as compared to GEC Thrissur.
Along with the placements, the brand name of NIT when added to your resume can help you immensely for your future professional life. So think twice and consider all the factors before taking final admissions.