I am running MATE.
Synaptic, Network Manager and others are affected. Menus are disfigured, text is partially not readable, tickboxes have background colors, scroll bars are completely missing and other stuff.
Edit: It seems to depend on the theme. All the preinstalled themes cause problems (Menta, BlueMenta, BlackMATE, GreenSubmarine, HighContrast, Sparky3, TraditionalGreen, TraditionalOk). Adwaita for some reason never works on my systems. Even if adwaita-icon-theme is installed, I can never choose Adwaita. It has a question mark over it. Was the same when I still used LMDE.
But the problems also lead to that i could not change the theme anymore (corresponding window freezes). A complete dist-upgrade enabled me to change to another theme. An old theme I mixed from various themes still works fine.