I got it all figured out.
I would like to personally thank Don (dclifton) for taking the time to help me figure it out.
Also thank you to Roy, the look ahead is what I think fixed the problem. Here is what we did to get it going smooth.
-PP was Mach2/3 Arc inch
-CV was on but nothing else checked in the CV box in general config.
-Set look ahead to 200 (this I think is the key to the issue)
-Set my Accel to 13 from 20. 20 was good when you manually jog but when running a file 13 seemed to be the ticket. This setting is contingent on your machine. I highly recommend playing with it to see what best suits your machine.
Hope this helps someone out. Again thank you Don for all your help.