Hi there
With the latest update, the counter for Quests is missing in the sub-list and the overall number of items in that zone has been reduced by the number of quests not being shown. I think this shows that it not just that the Quest numbers are not being displayed the list but that ATT is not seeing them at all. Haven't checked if the same is happening in the main list. Went back to previous version and they are there. Same thing happened a while back where specific quests dependent on you being Horde or Alliance were not being displayed because ATT wasn't seeing if you were Horde or Alliance. Neutral World Quests are being shown so I think the same bug might be occurring.

This was fixed in 7502cc0. It was a similar bug as before.