Hi Costas,
Thank you for using syncfusion products,
At default the custom web view doesn’t have support to display PDF with annotation so we are suggesting you to flatten the annotation before display it in web view, please refer the below code snippet to flatten the annotation
PdfLoadedDocument doc = new PdfLoadedDocument();
doc.Pages[0].Annotations[0].Flatten = true;
Please try the above code snippet in your side and let us know the result.
With Regards,
Praveen