Ok, I turned off one of the lights and set the other one to run on the timers. I verified that it was running on the timers and then unplugged the light, waited a few moments and re-plugged it in. It resumed the program just like it should. Don't know if there is some kind of interference going on between the two lights or not, but I have left one of the fixtures off for now. Will keep trying combinations to recreate the issue. For now, it looks like I may have to just go with one light.
Thanks goes to Jon (SunBriteLED) for his patience with this. I will update if I can replicate the issue.