e-File Refund

I tried to e-File both of my Federal & State returns but was rejected due to either the wrong tax PIN or AGI number.  I logged in to my IRS acct and checked the AGI was correct.  Not sure how to resolve this issue, I ended up filing with the paper.  In that case, how can I receive the refund for the extra $25 that I paid for the State e-File?  I also paid $60 for audit protection.  Would that still be valid if I filed with paper instead of e-File?  If not valid, how can I receive the refund?