1. since subvention scheme is discontinued, the bank will not accept the pre EMI from the builder
2. so you will have to pay the pre EMI and the builder will reimburse it to you
3. as to the IT impact, the reimbursement will not be your income since you are only clearing the obligation of the builder - but in absence of a tri party contract between builder bank and you recording the terms of the subvention scheme, the IT dept may create issues
4. so i suggest that the reimbursement of pre EMI by builder to you be recorded in your registered agreement for sale
5. you will be paying the builder on basis of the progression of the project - that is the payment will be construction linked - so if the builder defaults in reimbursing the pre EMI to you then you can ask the builder to insert a clause in the sale agreement that in such an event, the instalment that you have to pay to the builder through your bank, will be reduced to the extent of the pre EMI which is not reimbursed by the builder alongwith interest as agreed