I'm so sorry for your wife (& you!), Rikky! It's miserable when you have adrenal issues and can't sleep. I went through that in the beginning and then recently again (due to hubby having surgery and the stress related to it).
LDN boost the immune system, so maybe it was too much too soon or too fast? www.stopthelymelies.com/low-dose-naltrexone-ldn.html
I do know that she is not the only one that LDN has not worked for. Here two results that popped up when I was looking for the one above: www.healingwell.com/community/default.aspx?f=30&m=1588366
This member though had good results first, then it kind of backfired on them.www.healingwell.com/community/default.aspx?f=30&m=3015607
This member didn't have success the first night, but lowered their dose and had a better night.
Maybe you can pick up some clues from those posts? There may be more if you did a search through Healingwell only.