OMG, the good news just doesn't stop.
I've had countless issues with stuff coming in goofy, especially stuff drawn at an angle relative to the default coordinate system.
I made a new coordinate system, as reference geometer, last on my list - hoping to use it for STL manual output.
When next I loaded the SW file, it respected that, and my part is perfectly aligned!
OK so I received my Ultimaker 3 in late may 2017 and i never updated the firmware around early September. After the update I noticd that the printer was significantly louder and thought it was normal. Just recently I checked how hot the steppers were because when I first got my ultimaker I remembered the steppers got warm on long 10+ hr prints. To my surprise the motors were too hot for comfort. I measured the temp with a multi-meter it it measured at 55 degrees Celsius. I have also been getting skipped steps which i'm starting to think is somewhat related to how hot the motors are getting.
I'm still using one version back, and will switch over when I get a chance. In a big rush to bang out this printer and I've got the plug-in working so well now.
BTW, using V0.5.4, perhaps V1 is in order soon, I mean, it works :-), and it will open assemblies!
I wouldn't have tried, but I mis-clicked and this relatively complex part came in just fine! Kinda exciting.
Feel free to berate my duct design. :-)