Using the self employed version, I noticed that not all of my estimated payments are accounted for in the reports. I can see them as a transaction, but not under the transactions report anywhere nor listed under 'estimated tax payments' in the report

Let me share how our program calculates the self-employment taxes, Info1557.

QuickBooks Self-Employed tracks your self-employed income and expenses, it calculates what you need to pay each quarter. These transactions will be seen in the reports or tax payments if you've categorized them correctly to the correct accounts. Let's ensure that they are categorized correctly.

You can also refer to this article for more information: How QuickBooks Self-Employed tracks self-employment taxes. 

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