Jefferson wanted to stay neutral the entire time during the war between Britain and France.
Britain captured all the ships we sent out today.
However, Britain captured Americans that were trying to trade with France.
Jefferson created the Embargo Act for this to not happen and Britain stopped capturing American ships, but now the problem were the Indians who were trying to stop the expansion of America's Territory onto theirs.
The British and Native Americans were in constant battles.
After all of the battles they had such as the Battle of Lake Erie or the Battle Tippecanoe the war was declared over by a treaty with Britain.