"Form 5329-T shows the total rollover amount on line A of the Excess Contributions Smart Worksheet and on lines 15 & 16 of the form."
This implies that you entered this amount as an ordinary traditional IRA contribution as I previously suggested as a possibility. If you made no IRA contributions, delete the IRA Contribution Worksheet from your tax return.
"the income summary screen shows the total rollover amount on the line, Pensions - nontaxable."
This is correct behavior.
