Hello Christoph404,
It's vital your invoice and payments are aligned so you can continue to manage your books with peace of mind. Rest assured, I'll be happy to assist so you can get back to doing what you enjoy.
Based on the details you've provided above, I recommend open the invoice, clicking on the payments associated with the invoice and manually making sure the payment(s) are aligned to the true representation of that transaction. I also recommend using a web-browser to get an extensive view of what's happening with the transactions.
Give this a try and let me know how you make out. I'll be one message away.