Be it fresher or not, MDI Gurgaon is definitely a better option than IIM Shillong. I have drawn a comparison between the 2 B Schools based on the following parameters 

Fees: The fees of the PGPM program at IIM Shillong stands at INR 14.6 Lakhs whereas that of MDI Gurgaon is INR 24,47,400. While some might comment on the huge difference in fees, the ROI at MDI Gurgaon is worth it.

Placements: The table below compares the placement statistics of both B Schools.

Location: MDI Gurgaon has a location advantage over IIM Shillong as it is located in the commercial hub in contrast to the North-Eastern location of IIM Shillong.

Though I have given my opinion about MDI being better, the final decision is yours to make.