Also just a quick note on this point:

"feeling much better (even better than before starting the original Progesterone). "

Did you get your levels checked after ? how long were you on the testosterone?

Non-management of estrogen levels is a very common problem with this type of therapy. There are two choice to do this 1) use an AI such as armidex or 2) reduce or /spread out the testosterone dose. This topic is covered extensively in the Testosterone Replacement forums. Its too bad you had no extra support in this. A local HRT doctor may have been able to help with that part of the therapy.

From my research in the TRT/HRT forums and also from my experience HPTA can be restarted. Also, in some cases low T is clear (eg. being in the low end of the "normal range" as a young man. the range includes young to old so that would mean you have the T production of an old man ! Not good). In some cases its not as clear.