this is not possible. When you set Dipswitches, the game MUST be restarted to take effect (like changing a config file needs to restart the software). Dipswtiches are not applied "live". This is the normal behavior on real MVS board and you can't bypass it.
and BTW, generally, you set dipswitches ONE time, on first launch (blood, difficulty, langage, etc.)...then you won't touch it anymore.
ps : you can change Dipswitches button so you don't "accidentally" press it (which is already hard because you have to stay for a while on that button !). Maybe by using some key combinaison ?