It's all definitely part of the grand scheme or the bigger picture of things. The Dalai Lama is far from stupid. Some people may think he makes mistakes, but with mistakes, he can correct it. He leaves the situation as it is even knowing what is happening. It is on purpose.
We can think whatever we like about the Dalai Lama, but the fact is, Shugden is spreading because of him.
I like this quote below from this website's homepage very much. It gives me courage and strength during dark moments I have from time to time.
" But some who are narrow minded, not understanding this point, consider this Dharmapala to be like an ordinary worldly being and, with supposed faith in the Dalai Lama and the Panchen Lama, disparage him; or else they indeed admire this great Dharmapala but criticize the Dalai Lama or Panchen Lama. Using either one as a reason not to admire the other and speaking badly about either in any way is the conduct of an ordinary being who, under the influence of attachment and hatred, just tries to help friends and hurt enemies; it obscures the increase of these great holy Aryas' deeds and creates the karmic cause to experience unbearable suffering in the future."
- Kyabje Trijang Rinpoche's advice in Music Delighting The Ocean Of Protectors:, 1967