MakerBot Print is our newest print-prepration software, which supports native CAD files and STL assemblies,
allows you to interact with all your printers via the Cloud, and many other exciting new features.
Sorry to hear you had issues. Without photos or measurements, I can't comment very much or know what to respond with or even attempt to fix. The part cooling fan speed is controllable so that if in your situation the nozzle is being over cooled by the ducts you would want to greatly lower the fan speed.
The 3D printers coming from Creality and other vendors have such wide variances in build fit, tolerances, and component versions such that it is impossible to make one set of parts that will work in every case. That's why there are so many different cooling options being developed. There are thousands of happy Hero Me Gen 2 users out there (as there are for the Bullseye). I am glad that you found a solution that works for you and your setup.