65 base is just 4 survey missions to -45, not 11, each mission is +5 rep.
issue with pirates is simple, when you defend yourself from aggressive pirate, each event is -3, getting two attacks invalidate your exploration quest, and unlucky visit to core sector may result in 5 or more attacks in row each will drop 3 points of rep.
rep in general does not prevent any events, ever with +100 and commision with sindria, they will try to burn your fuel production with colony in saturation bombing, just for lulz.
and in such case you won't be allowed to help your space station in defending versus raid, and this can and will cause issues, especially when raid beat station and instantly trigger saturation bombing without giving you chance to respond.
in such case positive reputation can be harmful actually