I'm aware that Israel is internationally recognized and I think it's legitimate. However that makes it an apartheid state that bombs its own civilians (as long as they are a part of the less desirable class). Also the term should be civil war, but you can immediately see that that isn't realistic because one side has 95% of the power.

You seem to be appealing to futility with "innocent people die in wars". You can use that to justify any and all behavior on the part of Israel, including genocide. I don't think that would be justified, so I don't buy the argument. States should be held accountable to their actions at all times, including during war.