Okay, I'd admit at the start I have been away for a while, but I don't understand why somethings are no longer working in the latest version of Iclone.

I have a puppet that I set transform points for on the timeline (traveling from point A to point B).
I set an initial start motion (standing up looking at cellphone).
I tested the animation and the puppet moved from point A to point B just as planned.
I then opened Motion Puppet to give it a walking animation.
I masked out the parts I used in the initial motion and previewed the cool walk motion. I noticed the puppet did the cool walk motion but wasn't moving forward.
I assume (my bad) that this was just an added feature and went ahead and recorded the motion. 
The first time the character still didn't move. After some unsuccessful online research, I decided to first do the cool walk motion, then added the transform points.
The puppet is now either stopping short by at least a quarter of the way or going way past the stopping point I set.
It's like on this new timeline, any motion I add comes with its own (unseen) transform point.

Thanks for any assistance.