One thing not raised on this thread is that the stationary aircraft was actually holding short of the position that it was cleared to. This was also a factor in the 380 vs CRJ incident at JFK. This raises two points (at least)
1. If you have turned off an active taxiway and then have to hold at a specified holding point then make sure you are clear of the taxiway and at the holding point. If for whatever reason you do not want to pull all the way forward tell Ground that you are still blocking the taxiway. Even with a modern surface management display system that projection into the taxiway may not be apparent.
2. Airports could put in sensors very easily at known choke points that would provide ground with the information that aircraft are still 'in' the taxiway even though turned off toward a ramp or runway. Ground based sensors without any weight or power constraints are probably easier to install.
And as I said before a few extra square meters of concrete would solve most problems.