I believe I have found a way to workaround this issue for the moment. If I pass -Djdk.gtk.version=2 to PDFsam version 3.3.7 it no longer crashes. However there is another issue with fontawesomefx, so there is still some work to do. I think I will forward this issue to the OpenJFX developers because it looks like a bug in the GTK3 related native libraries.
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