Not sure if the issue is with electronic payment systems in india. It is to do with the indian customer behaviour. If you look at it, the Indian customer is most comfortable with cash on delivery model not only in ecommerce but other commercial activites as well . Ecommerce in India took off when flipkart started offering COD mode of payment and now everybody is offering it (even amazon )
It would be difficult for etailers too move them to other modes of payment unless they offer incentives like discounts and cashbacks.

Alternatively Indians have to start getting into debt ie buying on credit cards without enough funds to pay the card bills. I don't see this happening as Indians tend to be conservative and will not indulge in such buying behaviour.