My standard way, and I think the traditional way, is to tap the holes, apply a force within the capability of the puller threads, then bump the center of the puller (directly over the end of the crankshaft) with a hammer. You shouldn't expect to get them off just with the puller screws, the bump with the hammer is essential unless it isn't on tightly.
Having said that, I pulled my B&S flywheel off not long ago just with the puller screws, by accident. Was just about up to the preload I wanted, and it jumped off with a loud bang without any use of the hammer. That is common with the B&S, but I think many other engine types require the bump to make it happen. The same applies with 2 or 3 jaw gear pullers: apply a decent load, then bump the end of the puller screw. Trying to get things off with sheer preload is abusing the puller, plus it often writhes around and doesn't pull straight if you try to do it that way.
