I am having a problem similar to that one and already posted there, with emacs, LuaLaTeX, and two PDF viewers (evince, zathura) on Ubuntu 18.04.
Problem: The forward/backward search has gotten really very fragile after my update from 17.04, every few LuaLaTeX compilations, my PDF viewer is either crashing while open, or not even opening after compilation. Pretty much the same behavior with Evince and Zathura.
I am using
packages from Ubuntu 18.04, particularly, texlive-base, texlive-luatex, literally, LuaTeX, Version 1.0.4 (TeX Live 2017/Debian)
except for Zathura (which I updated to the last stable 0.4.0 from their website, but that actually made no difference because to me it does not seem to be a viewer related thing, as the Ubuntu-packaged Evince crashes as well)
TiKZ, glossaries, biber, fixme, includeonly, however, the very same configuration has been working for me with Ubuntu 17.04. I posted some of my settings there.
Based on another question, I have been fiddling around with \include and \input and others of my latex settings (simplifying them, etc.), swapping there and back, including everything and commenting out stuff again.
Even with boiling down my latex document to a single use of \input, using status=final (no more fixmes), exluding glossaries (to reduce crossreferencing) does not seem to change that behavior in any way.
My intermediate but unsatisfactory solution: The only thing that seems to be working for me at the moment is to delete the synctex.gz file and then I can work again for a little while.
Has anyone currently a similar problem?
More details