If you already paid for an item but it doesn't appear as paid in My eBay, don't be alarmed. If the seller has acknowledged receiving payment from you, there's no problem.
If you paid for an item using PayPal, and your My eBay still shows it needs to be paid, you can manually mark the item as paid for your own records. Marking your item as paid does not notify the seller. Regardless of what the status shows in My eBay, as long as your seller acknowledges receiving payment, your part of the transaction is complete.
To mark an item as paid:From the left column of My eBay, click the "Won" link under All Buying.
In the Items I've Won view, click the small triangle icon located under the Action column for the item you want to mark as paid.
Click the down arrow next to the Pay Now button.
From the list, select Mark as Payment Sent. The $ icon turns blue, showing that payment is complete.

Note: If you pay for your item using PayPal, or the seller marks the item as Payment Received on their My eBay page, the status will display as Payment Sent. However, if you paid using another payment method, and you manually mark the item as Payment Sent, the seller is not automatically notified.