As the subject of the second clause is not there you technically have to guess, but thinking about it another way I doubt that they would have phrased it like that if やられてるし referred to the 流れ者. Note that even in the first clause 流れ者 is not the subject (it's 集落), so it would make slightly more sense, in my opinion, to choose option 1.
However I would not personally translate だが as "but", since there is no actual contrast between the two clauses. Japanese sometimes uses が or けど to connect two clauses which do not contrast.