The answer is:
Kinda.
It depends on the asm. One store has one that has a broken door, so I got to see the deck get shuffled from the top. Wow, it takes a long friggin time to shuffle. It looks like it has three chambers, and the first chamber which gets loaded by the dealer takes a long time to empty to get filled into another chamber. I have played many times at a half full table, and when the deck is done, we are still waiting for the second deck in the asm to finish! I've been tracking aces these past few weeks with no problems. I have not, however, played on some other models. I did see an advertisement for a particular shuffler that looks like tracking wouldn't work on. But I haven't seen in stores yet.
Moral of the story: Always test out the shuffler before placing the big bets.