Sometimes, it's not easy to add depends to activate or unactivate extension points.
Maybe it could be a good idea to order it with a priority ?

For example, at launch, we load all the InitExtensionPoint but sometimes the SchedulerInit arrives before the Init class. But this class is overrided by the Web and ODF plugins.

But in general cases, we must force extension points order and redefine it multiple times because of several environments. In most cases, this problem could be solved by adding a priority.