Did you split your pension? When you split your pension with your spouse, you will still see the full amount of the pension you received on your tax return as Pension Income on Line 115.
Then further down you will notice the amount you are splitting with your spouse is deducted in the next section to arrive at Net Income (Line 210 - Deduction for Split Pension Amount).
Your spouse will have one entry on Line 116.
Did you use AutoFill? It's possible that AutoFill downloaded a duplicated or invalid slip from the CRA. Check all the T4A and T4A(P) entries carefully.
If you are still having issues, please contact our phone support for further assistance. (*not available to TurboTax Free users*): https://turbotax.community.intuit.ca/replies/3152013