South Dakota went for Hillary in 2008 by 10 points. Let's not disregard that.
She likely only won it because she campaigned there while Obama ignored it and pivoted to the general (sound familiar?)
Besides, she got crushed in a state she won by 40+ points last time, so it seems quite safe to disregard it.
If you look at nearby states, there are a lot of similar patterns between 2016 and 2008. Clinton did much better in Nebraska than in Kansas, and did better in Wyoming than in either state. Its also important to note that Clinton has improved upon her 2008 margin in every state that borders South Dakota.