Manage Map Server Cache Tiles tool not loading scales

[GISNCC]

Hi,

I am running the manage map server cache tiles tool.  But when I select my input service all of my scales do not load as expected and only the top two scales.  There should be 20 LOD loaded.  If I run the manage map server cache scales tool all of the scales come up.  Also when I look at the rest end point all 20 scales are present.  I am finding the issue when I use a custom tiling scheme or if I just define a new one from the layer. 

I have tried so many iterations.  Sometimes it will load no scales at all. 

Any help is greatly appreciated. I am using ArcPro 2.9 and enterprise 10.9