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This is a bug - it's showing only the part that's visible in the window. Please file a bug on the Wireshark Bugzilla.

Of course I already tried unchecking the Limit to Display filter checkbox with the same results

"Limit to display filter" means "show me only the flow graph items for the packets matched by the display filter"; it has nothing to do with limiting what's saved as a PDF to what's visible in the window. It doesn't affect "Save as PDF" - which is arguably another bug; it should save the graph that's currently being shown, even if that's limited to the packets that match the display filter.