correct me if i'm wrong, but i noticed such behaviour before and it was because of the bot setting.
 - bot cannot handle difficulty settings (for example if you leave in cruel and want to start botting merciless)
 - bot cannot handle different camps (for example if you leave in act2 and want to bot act3)
 - Bot cannot handle Act3 City of Sarn, somehow bugs around and mixes act2 and act3 camp
 - Bot cannot handle Act2 start area (forest)
  
 you might wanna check again if your ExiledBot Last difficulty unlock:, Last Act unlocked, Botting difficulty and Botting Act are synchronised with your ingame state. mis-selecting one of those might cause the confusion in selecting areas for botting. 
  
 - NPC Vendor bug is quit annoying - happens everytime when i reinstall a fresh bot. Clarissa etc.
  
 for this one you might want to edit the coordinates.ini.