National Highways Authority Of India [NHAI] — Toll collection from Fastag for vehicles with exemption

The Khed Shivapur toll near Pune, Maharashtra has exemption for vehicles with registration MH12 and MH14.
While crossing the toll with my MH12KT7903 vehicle I had to pay toll with Fastag.
1. 15 Jul 7.57 pm -- Rs. 50
2. 15 Jul 6.43 am --Rs. 100
3. 3 Jul 6.47 pm -- Rs. 50
4. 3 Jul 6.18 am -- Rs. 100
5. 18 Jun 7.12pm --Rs. 100

Please let me know how to get refund for this and avoid further deductions on this toll.