for that last bit you will need to do some manual adjustment the script only fixes the transition problem shown in your first post because the poses where created for a different figure they will never be quite right but its now close enough for some slight adjustment to sort it out.
You can check out PoseMaster which is designed for transferring poses between figures, in addition to some other posing tools as well. Follow the link in my sig. There’s a thread in the old forums with video tutorials to give you some idea what is possible.