I came across this issue as well with Boarding Party and Foundry. I had not completed the "Call to Arms" quest or either of the flashpoints on normal before. I had to abandon both the "Call to Arms" quest and the quest for the flashpoint, Then I had to re-accept "Call to Arms" (which is still a normal quest). "Call to Arms" has you walk into a story area and talk to some moff and he gives you the normal flashpoint quest. At this point I abandoned just the flashpoint quest and kept "Call to Arms". then to re-accept the flashpoint quest you have to talk to the guy standing outside the entrance to the flashpoint. When I talked to the guy then, I had the option to chose hard mode. I don't know if this will work for anyone else, or how that translates to republic flashpoints, but I thought I should put that out there.