Income tax refund

Dear Expert, One of My Friend fill Income tax return 25/07/2018 for A.Y 2018-19. Dated 07/09/2018 he revised these return. same Income same TDS Amount. Only TAN No Change. he fill original return wrong TAN. So he revised these return 07/09/2018. Dated 23/09/2018 revised return processed by CPC, and Intimation order send mail id. he claim TDS refund 13841. But as per Intimation order show refund amount 12841/- Rs. 1000/- show in Fees U/s 234F.

But he fill return timly.

Please Suggest me.