From watching AJPN on Livetube... It's critical to get hypers back quickly and to time them very well, and you should make sure you can end the stage at Maximum to gain an extra one... and of course time your hypers well. As far as I can tell, the safest way to get a "big" hyper refill is to grab a flashing bee while hypering, though I think I've managed to get a large refill without hypering a few times.
Some lasers can still be used to raise the hit counter very quickly (the stage 4 turret is still the biggest one, or the stage 5 laser wall, or the tanks on stage 1 on Strong, and even the extend installation on stage 3 for a couple extra thousand hits), though I'm not really sure which ones can be used for that purpose (I don't remember seeing AJPN go through the Ura stage 2 midboss, say). Other than that, there doesn't really seem to be any scoring "trick", outside of some boss milking for the bold.