If you enter a Form 1099-R and in the online version mark the checkbox on the Do any of these situations apply to you page to indicate that you made a QCD or in the CD/download version answer Yes to the question that asks if you had any or the distribution transferred to charity, TurboTax will exclude from Form 8606 whatever amount that you indicate was a QCD and the QCD amount will not change your basis in nondeductible traditional IRA contributions.
