I also had several problems on Ubuntu 16.04 with cb built from svn.
It looks to me that the wx-3.0.2 shipped with 16.04 made it effectively unusuable.
It got a lot better, after I uninstalled wx-3.0.2 and compiled wx-3.1.1 from trunk instead.
I had to reconfigure and rebuild cb after that as well. Please be aware, that
my computer ran out of memory (16GB) compiling wx or cb on Ubuntu 16.04 using
g++-5 or 6 with make -j. Using make without -j works. When I compile my projects
via cb I do not observe this and can use all cores again.
I still have parts of codecompletion disabled (e.g. symbol-browser), Still somewhat
annoying to me is the broken key F2 when you have the keybinder plugin enabled.
I have a hack that fixes it but I try to find the bug within the plugin.
To be able to get rid of the bleeding-edge wx (just in case), I did no simple
but
sudo checkinstall make install
instead.
Fortunately I have no important apt-packages that depend on the preinstalled wx version.