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After merging .pcapng files into another .pcapng file, you ought to be able to determine the file from which the packets originated using the frame.interface_id field, which you can see if you expand the Frame details in the Packet Details Pane and which you can apply as a column. That would, I think, negate the need to set the frame.comment field.

See also these related questions and associated answers:

  • https://ask.wireshark.org/question/1804/how-to-identify-frames-from-which-merged-capture/
  • https://ask.wireshark.org/question/6030/how-can-i-see-the-interface-name-and-dlt-for-a-packet-in-wireshark/