If PQI was the problem (I don't think it is personally) then it would be fairly easy modify it to sit this outside of WoW, would mean tabbing to change settings but thats how HB works anyway.
The way PQR works it would be pretty easy to detect if they wanted to server side, everyone just assumed that Blizzard weren't interested in doing so due to the fact the economy was not being exploited (in any serious way, such as farming bots etc). PQR IMO is probably dead, Xhelper has already said he won't be updating it. If people want to continue using automated routines that work in a similar way to PQR there are plenty of (more secure) alternatives for little (or no) outlay. I wouldn't trust free alternatives though now Blizz are clearly onto these types of automation bots. Personally I'd suggest a more complete solution from one of the leading bot developers