When VADM Shoemaker and RADM Bynum came and spoke yesterday, they mentioned that the CoC was due to needing a more senior CNATRA and someone with a jet background. VADM Shoemaker also said that since RADM Bynum was about to deploy, he had extensive and recent experience with TACAIR fleet needs and dealing with PE issues. I got the feeling that there was more than what he was saying, but I'm just a dumb Ensign and I didn't stay at a Holiday Inn last night.
I also found this article from a week ago, stating that RADM Bull was "directed to report to Washington, DC.... to lead a team to solve problems with Navy and Marine Corps fighter jets."
http://www.kristv.com/story/35739319/new-chief-of-naval-air-training
As for the T-45, VADM Shoemaker said they are working on a number of possible solutions, and are hoping to have 25 aircraft ready to go by the end of July, and 80 by October. Re-start of production is targeted for October, and then they can begin to work on what he said was a ~6 month backup in the pipeline.