How can I get my last 2 estimated federal taxes to show up? I had been sending in checks, and now doing through quickbook SE. They are in and category correctly

I understand that you need help with showing federal tax payments for July and September, Craig. I can guide you on how to do this.
 

To make a settlement, visit the Quarterly Taxes section and click the Pay Now button to create a payment voucher. Please note that this is not the actual payment yet. You still need to record it on the Transactions list and categorize them as Federal estimated taxes to ensure that these will reflect in your Taxes section.

For example, let's say you have a total due of $12,406, which is the sum of Q1, Q2, and Q3 payments. 

Follow the steps below to record these tax payments on the Transactions page:
 

1. Go to the Transactions menu.
2. Select Add transaction.
3. Enter "(Date and fiscal year) quarterly federal tax payment" in the description field.
4. Enter the amount and the date you made the payment.
5. Click Select a category, choose Taxes, and then Federal Estimated Taxes.
6. Select Save.

Once done, the total tax due will be reduced to zero, and the payments will be displayed in the Payments to date section.

You can also check about paying federal estimated quarterly taxes in QuickBooks Self-Employed.

If you need further assistance about making tax payments, please comment below. I'll be more than happy to help you again.