That was the first thing I tried when this happened, but I got no message. I've checked Primm and the Lucky 38, but to no avail. My fear is that ED-E got stuck somewhere behind a rock or something on the way back. The Mojave Wasteland is a big place for a small robot, and I'm not about to waste my time looking for him just to tell him to leave my party. I think the only thing to do is start a new character so I'm going to finish the story and start all fresh again. Thanks for the advice though.
It might be worthwhile to continue on with missions that won't require the help of two companions and see if the script eventually triggers. If the AI works as it did in Oblivion, the complexity of AI behavior scales down drastically the further you travel from their location. So, if you are on the other side of the wasteland there is no use for ED-E's pathfinding AI, and it would simply calculate the time to travel, or one can only hope, magically appear... somewhere?