I have gone through 3 tax audits-by-mail in the last 12 years. And based on those experiences, here is my challenge to you: don't let a tax audit shake you up*.
In my first audit, the agency challenged the taking of an IRA contribution deduction based on the contention that one couldn't make contributions in the same year to both a 401(k) and an IRA. But that was not quite so. In certain situations, you could. And I submitted documents to show that this was indeed my situation. Case closed.
I can't remember right now what the second audit-by-mail was about, but I resolved that one too.
Six weeks ago, here they were again asking for another $2991 on our 2012 tax report based on the contention that we had a bunch of unreported but taxable income from limited partnerships in which we owned shares. Again, not quite so. I responded that all those shares were owned by our IRAs, and not by us as individuals and that therefore the income from those partnerships did not belong on our individual tax reports and no additional tax is due. I just got their reply back: send us copies of the K-1 forms showing the shares were owned by the IRAs and we'll "finish processing the file." Piece of cake.
Just so you'll know: my first reaction upon seeing the IRS return address on the initial envelope is always concern, my second reaction upon reading the first paragraph of the letter is always alarm, and the third reaction when I finish reading through the letter is a semi-scornful shake of the head. There's always a leap to an unwarranted conclusion, there's never any real research into the situation, and there's always a guilty-until-proven-innocent approach. But don't let that throw you.
If you are right, stand up for yourself. If you aren't sure, do the research that the agency has left undone and you may very well find a solution (like I did with the IRA contribution case). Just one thing: make sure you keep ALL your records and worksheets -- and even scratchsheets -- for at least 8 years.
And don't let them shake you up!
Anyone else have a similar war story to tell?
*but bear in mind that I am not a tax professional and I am not giving tax advice here. :O