Organized indian resistance to american control ended in 1890 after the battle at wounded knee creek little bighorn river wapelleta river sand creek

Organized Indian resistance to American control ended in 1890 after the battle at Wounded Knee in South Dakota. However, it is worth noting that many today do not regard that as a battle, but rather as the Massacre at Wounded Knee due to the gap in preparedness between Sioux and US forces and the high death toll of Sioux women and children. Prior to the events at Wounded Knee, US troops had assembled Hotchkiss guns pointed at the camped out Sioux and many US troops drank heavily the night before. After a spat of confusion where US troops sought to take all Sioux weapons, a shot was fired and US troops opened fire upon all inhabitants of the camp killing almost upwards of 200 men, women, and children. 

The answer is protestant reformation.