Not sure if this helps, but yes move route does not work to *hide* your player in a cut-scene atm, which sucks but its so minor that the very fact that it came up in a topic baffles me.

see... an easy way to *hide* your character is; before the transfer to the cut-scene map simply change your actors graphic to nothing via event command "Page 3, first column, choice 15" set it to "actor, none, none" it will look similar
to: "Change Actor Graphic: Mixxth,,0,,0" hope this helps