It would improve speed of course, but unless the emulator was specifically coded to work with an overclocked DS, you would have no way of limiting the speed to 100% for emulators that already run at fullspeed or near-fullspeed.
While both activities, docking and blaster modding, are broadly similar, in that they're both sticking my smaller tool into a bigger tool for fun and pleasure and make me shoot harder, the mod I have in mind involves a little more cutting and dremeling and hot glue.