Try putting a transient designer in front of the ApTrigga to make those drums pop, giving you an easier time to work with the trigger settings. Digital Phish Phones has one called Dominion at no charge.
Yea, I've actually been using dominion on a few of the tracks, depending on whats triggering well and what isn't. I'm starting to roll along now, it just sucks because I'm only able to work on the project in short bursts of an hour or two or so, because of my day (night) job and everything else.
I'm actually cutting the snare tracks into 3 different tracks each with it's own aptrigga preset, so I have one for all the hard hits set to random and a fairly high threshold, one for intermediate hits to help with rolls and flams set to a lower threshold, and one for soft hits for the soft double stroke rolls. Seems to be working a lot better than trying to use one aptrigga to try to capture everything. It also seems to require a lot less editing of the waveform to avoid false triggers. I still have all of the original tracks going as well, so I can blend everything later during the mix without having to mess with the different aptriggas which are all set to 100% sample.