There is no better solution?
One of the Fotoba cutters but I do not think there is one below $ 5K. Or preserve an abandoned printer for that task. Drive it from an Arduino board. After a long delay I dismantled two Epson 9000's, kept the essential parts like the rail, media transport, head carriage, encoding strip, stepping motors. For a project like that. They may never be used or be recycled into an automatic 44" wide spectrometer target reader, a cutter like you need, the two for a dual axis camera/scanner and with an extra axis added into a 3D printer. Solutions start by dreaming, followed by analyzing then deduction comes which rounds it off to zero result most of the time.
You could try cut marks in Qimage Ultimate and it has a complex path to make them light yellow. i do not think there is much gain in time as the head has to move to the left side too then. Be aware that an hour cutting with an iPF6400 keeps 11 ink channels inactive for that time.
Met vriendelijke groet, Ernst
http://www.pigment-print.com/spectralplots/spectrumviz_1.htmDecember 2014 update, 700+ inkjet media white spectral plots