I have 2016 running with SP 3 also. HP workstation with Windows 7.
This problem of parts disappearing has been a problem before, but now it's worse in 2016. Parts disappear when they are revised in an assembly. If the part is open as the same time as the assembly, when I go to the part, sometimes it's invisible, even though it shows that it should be visible. I have to toggle it invisible then back to visible to see it.
This seems worse than 2014 that I just switched from.