It should not take longer due to being self-employed. IRS actually just started processing returns (other than a few test ones) on Jan 28th and we are only at Feb. 6th right now. So it not unusual for people to not have refunds yet. The identify theft and the fact that the PIN might slow things a little bit,(might) but the fact you do have the pin helps dramatically with that. Be patient and check the progress and it will be here in no time. Wish I could help more, however once it is filed, you have to wait for IRS to process it.
