Champaran HumSafar Express : इन अजनबी सी राहों में, जो तू मेरा हमसफ़र हो जाये, बीत जाए पल भर में ये वक़्त, और हसीन सफ़र हो जाये. - Piyush Singh

I have attached an initial report from 2012. You can see in Page 117 where they have listed the freight routes in SCR where the freights are being carried by the longer route, but are being charged for the shorter route. This report is about the rationalization of freight routes in IR, and talks about such cases in all the zones.
For SCR, 3 such problematic routes were identified. WL-BZA-NDL-GTL instead of WL-KCG-KRNT, WL-BZA-GNT-Miryalaguda instead of KZJ-Pagidipalli-Miryalaguda, and GY-RU-KPD instead of GY-DMM-KPD.
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For the GY-DMM route, the issue was due to rising gradients requiring more locos for freight trains to meet schedules. So electrification was commissioned at the time this report was drawn up. Another report from 2014 mentions the surveys on the other 2 routes too, but I am unable to find it online.