I have the same problem.
Sometimes it won't loot the mobs (loot mobs is checked) or skips skinning them (Skinning and ninja skinning is turned on).
It looks like it's happening when there are multiple mobs and the bot used disengage (hunter) which makes the the range between the bot and the corpse bigger. I'm guessing the corpse is too far out of range for him to notice it before going to the next hotspot/target. Dunno if it's a profile thing or a HB thing.
Another thing just happend...
The bot tries to take the FP but the bot is in combat while it had an eel targeted and this is why he couldn't fly.... This is a Blizz error though lol
The profile does seem to be working for the rest (just started it).
Now hopefully someone can get the Frostwolf War Wolf working in questbot
Edit:
My char just died to a nagrand prowler (npc=81902) which kinda weird cause according to wowhead/wowdb they shouldn't be in the area.
The weird thing is, the bot isn't attacking them so I think you blacklisted them (I'm new to HB

)
Hmm just checked the xml and you did.
I removed them from the avoid mobs but is there a way to avoid them but still defend against them if needed?
Edit 2:
I'm getting the same in combat, can't use the FP problem again.
Dunno why but I saw my bot running through the water from the fp under the bridge to Lok-Rath and back again. And after that he tries to use the fp to the Ring of Trails even though I haven't reached 1000 bones yet.
I'm using the [DKTG][N][QB][Meat+Skin]Nagrand-TalbukCleft+BoneTurnIn profile from the SVN btw