Here is a dilemma of a Dorje Shugden practitioner:-
I have two Lamas and one of them is the Dalai Lama and I sat through a Kalachakra initiation with him. After that, I met another Lama who is a Geshe and he taught me the commentary, set me on retreats, taught me the Lamrim, 50 Verses of Guru Devotion, Mind transformation teachings and so forth. Finally, he even gave me his special secret practice - Dorje Shugden. What do I do? Do I give up Dorje Shugden and look for another Lama who does not practice Dorje Shugden? Do I forget the Dalai Lama and carry on practicing? What do I do and what are the implications of either actions? Is there an alternative for me?
Big Uncle, thank you for sharing this with us.
I am not in anyway in a situation like ours, so my thoughts on it are theoretical.
1. Is the Dalai Lama your root Guru?
I do not think that sitting at a Kalachakra initiation among many other thousands of people may be what qualifies the Dalai Lama as your root Guru, unless of course, you visualized His Holiness as your root Guru and HH also was the main Lama who brought you to Buddhism and that propelled you to start practicing, and even more so if the Dalai Lama is the monk that gave you refuge.
So, if I were you, I would find out first who is my root Guru, but I am sure you already have a clear answer on that.
2. If the Dalai Lama is not your root Guru and if your root Guru practices Dorje Shugden, I do not see any conflict to be resolved.
3. If the Dalai lama is your root Guru, there is indeed what appears to be a conflict, and you are finding yourself in a situation where many others are at the moment. And the best advise I can humbly give you is to learn as much as possible about the ban from this web-site (which is excellent) and elsewhere too and make your own decision as to the matter. Perhaps you should also request for guidance from the geshe that initiated you into the practice of Dorje Shugden.
4. At the end of the day, I would also divert from focusing onto a conflict that only has two solutions: "I practice / I don't practice", the matter may be less stringent than a choice between two solutions, there may be more than two solutions.