The following code produce an incorrect PDF :
String fileName = "/tmp/Powerpoint000020.pptx";
Presentation presentation = new Presentation(fileName);
PdfOptions options = new PdfOptions();
options.getNotesCommentsLayouting().setNotesPosition(NotesPositions.BottomFull);
int[] slides = new int[1];
slides[0] = 4;
presentation.save(fileName + "_page"+ 4+".pdf", slides, SaveFormat.Pdf, options);
This is the input file
https://www.dropbox.com/s/xciu5bi25mttgm3/Powerpoint000020.pptx?dl=0
We observed during our tests that the problem occurs often in presentation with Charts. Let me know if you need more examples.