Another thing to note is that I had Skyrim set my default graphics settings on my recent playthrough and didn't let any external program touch those settings (like NVidia Experience). That may also be a huge factor in having more success. Zaric Zhakaron has a pretty decent mod load (http://www.zhakaron.com/2017/04/nothing-special-here-skyrim-special.html) and his Twitch live playthrough didn't have have any of these issues. Note that he has a his own SkyUI port, so I might test with that one. Also, I don't know what his hardware setup is, so that may be a huge factor as well. I personally have an older machine (about four years old), so it may be just an older hardware issue. Still, without SkyUI and 245 plugins (including SSEEdit merge patch and bashed patch), I hit the problem only once after one hour+ and that was while I was playing based on NVidia's recommended settings and not Bethesda's recommended settings.