It's my pleasure to help you find the bill payments that weren't transferred to "Print checks" because the "Print later" box wasn't selected. Let's locate those transactions and get this resolved for you, @bodi333.
In QuickBooks Online (QBO), we have multiple options to locate those bill payments. I'll provide the options and steps you can follow.
First, click the Search icon and look for the bill payment in the RECENT TRANSACTIONS section. Please see the picture below for your visual reference.

Second, let's locate through the Vendors section. Here's how:
- Go to Expenses, then select Vendors.
- Select the vendor for which you created a bill payment.
- Locate the bill payment under the Transaction List, then click View/Edit.

- Check the Print later checkbox, then select Save and close.
We can now view the transaction in the Print Checks section. Please ensure you go through the Print Checks setup before printing to align your printer and checks correctly.

Additionally, we can run the Transaction List by Vendors report to locate those bill payments that weren't in the print checks.
You can read the article below for your future work reference:
Thank you for reaching out for assistance. If you have further questions, please reply to this thread. The Community team and I are here to help you. Your success is our priority!