May not have a lot of advice but I can tell you that the 4th and 5th time I filed my Federal personal I entered a 0 for the AGI and it went through on the 5th try. Still have two returns (Federal S-Corp and NM State) stuck in the pending status (3 days now). If you haven't tried the 0 AGI yet, give it a try.
Next year I'm going back to paper returns.
