Sully lies to everyone about what he is doing, but the truth comes out. Cloud Dancing flees to the Tongue River Valley. Sgt McKay (David Beecroft)sees Sully at the scene. After Sgt O'Connor (Patrick Kilpatrick) finds out what happens, he goes after Sully. They get into a fight and they both go over a cliff
Everyone is doting on Katie and Brian feels slighted. Brian receives a letter and picture from his real father, which leaves him feeling like he doesn't belong anywhere. Brian starts behaving badly. He gets Anthony to skip school with him and they hop a train. Sully punishes Brian. When Brian questions Sully's actions, Sully says that he is doing it because he is his Pa.
When Colleen, who is working on a college paper, asks Dr. Mike to recall her most memorable case, Dr. Mike looks back on the five turbulent years she's lived and loved in Colorado Springs. As they sit with Andrew, who is mysteriously ill at the clinic, Dr. Mike reminisces about her tumultuous career -- its successes and its failures -- and realizes how many divergent cases she has seen and treated. When Andrew's condition takes a turn for the worse, Dr. Mike warns Colleen about the fine line between emotional involvement and professional detachment, an issue with which she has long struggled in the frontier town that's now her home.
When three people die after coming in contact with something in the clinic, and one is deathly sick, Dr. Mike, Sully, Colleen, and Andrew but their heads together to find out what it was. They figure out that it was something in the clinic and now it is everywhere. In her case, on the instruments, the sheet. The only solution is to burn everything. When that is done, some are genorous enough to give Dr. Mike some of there things, but they are scared to come in. When Sully must get stitches, and lives after being treated by Dr. Mike, she begins the road to being reaccepted by Colorado Springs.
Sully goes to Denver to negotiate the release of Cloud Dancing from the army. One of the conditions is that Sully is no longer Indian Agent and may not ever step foot on the reservation again. On the way home the train crashes, injuring most on board. Andrew learns a lesson in humility by watching Michaela in action.