This morning I decided to factory reset the eisy and started over by migrating my backed up 994 file. Everything transferred easily and worked correctly. The ISY portal and Alexa integration were easier to connect as the license had been transferred already. Voice commands worked right away. I then installed the PG3 Elk Node Server to replace the Elk Module. All went well and everything seems to be working fine. No lights on and off, dimming, system busy or weird behaviors.
For me the only change was that I did not use the UD Mobile app at any time during the migration process and did everything via hardwired ethernet.