Where do they appear?
At the start of the game: Anywhere - as mentioned elsewhere there are inacessable places where rebels appear (Spain, Armenia). Unfortunately for you they've been there from the start.
It's said that there is an increased chance of rebels where there is unrest or slave boosts in a city.
Evidence: Rebels don't appear in long settled provinces.
On the road to a port: Never - the game allows only a blockade to disrupt sea trade.
Evidence: Ever seen rebels on Caralis?
Rebels generate on road trade routes - if you a find a particular group too irritating then reload.
The chance of rebels increases with the length of road.
Evidence: The constant appearance on Scythian roads. And then there is Halicarnassus - often has rebels at game start, but never after (only a port road and very short road to a bridge).
Rebels can be 'nudged' off roads to free up trade - and even better 'nudged' into another faction's territory :)
Edit: Ooops wrong again. I've just discovered rebels not on a road in Halicarnassus. Tit
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