Thank you, you were right the nodes werent properly locked into the comment squares, so now they are staying in the comment squares but as you can see in the image the comment squares get all overlapped after autoformat. Which option handles that? I assume it is a padding option or perhaps an option in the AutoSizeComments Options?
Also, if you look at the left image, sometimes I like to put smaller comment boxes inside a larger shared comment box, can AutoSizeComment handle adding all that together? If so, what is the correct order? for the larger box do I only add the child boxes and not the nodes within the boxes?
Apologies for all the questions lately, I am very grateful for all your help! Hopefully this will get me all squared away 
