Concur, most run time error crashes I've seen are mid game or later and don't depend on faction. This is a frustrating bug. Previous bugs generally produced a mini-dump and related to one or more problems with the ship or planet orbital abilities or a research path problem. At first I thought it might relate to the more difficult AI cheats that allowed the AI to bypass parts of the tech tree and acquire some tech before others but after exhaustive troubleshooting I ruled that out.
Since the run time error is common to all races the error is most likely a call the engine is making to a file in the base vanilla game. The other thing I thought it might be is exceeding the 2G RAM limit due to excessive fighters, missiles, etc but there are few common techs or abilities added and it wasn't a problem. So that leads me back to a call the program is making to an original game file or process that when executed uses up all available system resources. The run time error doesn't technically crash the system it just maximizes available system resources and effectively halts the game.
The error could have been introduced by an update to the base game or a file change in a mod build. The error first occurred two internal builds ago but there has been an intermittent run time error associated with MP games that has come and gone without clear resolution for several years... The most recent run time error is particularly vexing as the usual troubleshooting approaches don't work as it appears to be common to all variables.
If you read back several pages New Horizons made several good suggestions on possible trouble shooting aids but I don't know the resolution of his advice.