Refund of Late Filling Fees

I have one client who has one Pvt Ltd company which is non operative in current FY. We have filled GSTR3B return for August on 24 Oct and hence got a liability of 7600 /- for late filling. Interestingly on 24 evening , these charges has been withdrawn by GST council .
My query is , the liability is still appearing in electronic liability register . Do we have to pay it in order to file return for september or is it likely that it will be reversed automatically and we should wait till then.
Regards
Gaurav Saraswat