Since I can't reproduce the issues you refer to, I would have to see it happen in order to attempt any changes. If you could screenshare with me or provide a gif/recording, that would suffice. Skype is on my profile.
I wouldn't consider 1 pathing error in 4 waves 'constant errors'; and it's not something that will visibly disturb the script.
Can you elaborate on what happened with the prayer flicking?
Generally speaking it does allow itself to enter melee range of jad, but will fall back to melee prayer when doing so.