During questing (Cava) most times when I discover a new flightpoint the bot blacklists it and ignores it. Think it has something to do with beeing mounted or not not while you engage with the flightmaster.
I actually thought it may have something to do with my Combat Routine. I'm currently using TuanHa's Rogue CR, which is amazing, but sometimes I'll quest myself with the Routine on and Combat Bot on, and what happens is when I right click a flight path, it X's it out immediately. I'm not really sure why it does that and I am also not sure if it does in fact have ANYTHING to do with the CR because it is the only CR I have ever used. (Last time I was using Honorbuddy before last week was when MOP first released).
try the latest beta, you can grab it from here. http://updates.buddyauth.com/GetNewest?filter=HonorbuddyBETA make sure to do a clean install into a new folder.
Tried to get the beta running doing quests for more than an hour. Came to the conclusion it`s less time wasting waiting for the bot to ride everywhere and have a beer watching him doing that. Allowed the beta to telephone home, so i think you dont need a log as you have them anyway. all the best driv0r