"[Violation] Annotations were found inside the BleedBox, TrimBox, or ArtBox on the following pages" and PDFX/1-a standard

[Joanna Przystup]

I have a problem with distilling ps file with the PDFX/1-a standard.
Document is printed to ps from the FrameMaker application.
 
While distilling file, Acrobat Distiller creates a log containing following
message:
"[Violation] Annotations were found inside the BleedBox, TrimBox, or ArtBox
on the following pages"
and therefore none PDF file is produced.
 
I guess that it is related to the cross references. But what is strange - it
doesn't appear in all of the books. When printed document is structured - it
is printed well with the PDFX/1-a standard, and doesn't complain about
annotations.
 
I've found two solutions for now - but none of them is actually acceptable:
-    replace all cross references with text
-    do not select Generate Acrobat Data when printing
 
I will appreciate your help with solving this problem
 
Joanna