Not possible anymore. You guys should definitely add more information logged because it's impossible to track down what entity or blueprints or whatever object is causing error other than pure going through everything which is almost impossible on a relatively big server.

This bug doesn't seem to exist in the newer version of Starmade. So I guess it's fixed.

Yeah, that's right. I haven't found any other problem with this yet.

New details.
The issue seems to be directly related to faction blocks.
It works just fine if the receiving entity and the docking entity are not factioned, but factioned entities actually cause the bug.