The indians, or Native Americans, fought the settlers for many reasons. The settlers were stealing their lands and hurting their women. It is the natural instinct to protect what is yours. To find out about specific tribes, you can research the specific areas.
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Pontiac 's Rebellion
Because settlers where greedy, or maybe some Native American tribes were not peaceful. Also many settlers had little respect for the Indians ,because the settlers supposedly thought that they were higher than the Indians.
American settlers took their land
The Indians felt that they were superior to the European Settlers and would only he if paid.
The Indians initially wanted to stay neutral during the Revolutionary War. However, some groups selected to fight with the British and others with the Colonists. It appears the decision was based on which side the group of Indians thought would protect their lands.