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https://issues.apache.org/jira/browse/PDFBOX-5276?page=com.atlassian.jira.plugin.system.issuetabpanels:comment-tabpanel&focusedCommentId=17409980#comment-17409980
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Tilman Hausherr commented on PDFBOX-5276:
-----------------------------------------

I haven't tested it myself but I just looked into the code, the new document 
doesn't get the encryption info at all?!
{code}
    protected PDDocument createNewDocument() throws IOException
    {
        PDDocument document = memoryUsageSetting == null ?
                                new PDDocument() : new 
PDDocument(memoryUsageSetting);
        document.getDocument().setVersion(getSourceDocument().getVersion());
        
document.setDocumentInformation(getSourceDocument().getDocumentInformation());
        document.getDocumentCatalog().setViewerPreferences(
                
getSourceDocument().getDocumentCatalog().getViewerPreferences());
        return document;
    }
{code}
Did you call save() on the original document?

> Encryption on Split documents
> -----------------------------
>
>                 Key: PDFBOX-5276
>                 URL: https://issues.apache.org/jira/browse/PDFBOX-5276
>             Project: PDFBox
>          Issue Type: Bug
>            Reporter: Dustin
>            Priority: Major
>         Attachments: ShouldNotBeEncrypted.pdf
>
>
> Splitting a two page document into two separate documents via 
> org.apache.pdfbox.multipdf.Splitter
> Then using the List<PDDocument> returned to encrypt the first document causes 
> weird side effects on the second document in the list. It will still open 
> with the owner password of the first document (Even though it shouldn't be 
> encrypted), but it is unreadable.



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