The only time I pause shooters is usually right after beating a stage boss. Most of the time if I die during the actual stage while playing for score I just get mad and blow up everything on the screen when I'm supposed to be acquiring points using those enemies; such as Progear and Guwange as examples.
If you're playing a game like Mushihimesama and you like acquiring points, you should just take a small break as it counts up your score. If you acquired a lot of points that score add up screen can take quite a while to finish.