Thank you for reaching out to us here in the Community forum, Alaa Chayyah.
There are few factors to identify whether there's an issue between Stripe and QuickBooks. One of these is when Stripe transactions aren't added successfully to QuickBooks. Thus, it will cause issues and incorrect balances of your reports and financial reports.
To isolate the issue, you can re-initiate the connection between these apps for a smooth connection. Moreover, you can connect with Stripe Support for more details about how this application works with QuickBooks.
Here's how you can learn more about automating the transfer of Stripe sales activity into QuickBooks.
On the other hand, you can run your Profit and Loss report on a cash and accrual basis to get accurate results and balances. For more tips about handling your reports in QuickBooks Online, you can check out this article: Run reports in QuickBooks Online.
If you have any other QuickBooks questions, please let me know by adding a comment below. I'm more than happy to provide additional assistance. Keep safe!
