I did the infected and got to the last part before killing the queen (probably 14 times now). I looked at my status and it said I had 2 marks of valor. I dropped the quest and then waited the next day 24 hours. I accepted the quest again and went through the whole part up until the queen again. But I did NOT get any more marks of valor. I thought you were supposed to get a mark of valor for killing the borg commander. Neither did anyone else in my team. I don't think it's even worth doing this mission given that fact and the fact that the equipment you can buy with the marks are probably not going to be that much better than the pvp daily and exploration daily merit equipment. Also, it is so bugged. There are so many instances where you can easily get stuck, or even sucked back out of the instance outside of the force field by accidentaly placing a cover shield somewhere. I reported the bugs, but we all know that won't get fixed for another 4 or 5 weeks.
The Tactical Cube in the first space section will sometimes go into regeneration mode and not fight back as it should. As such the Marks of Valor that were being given out by defeating the Tactical Cube have been moved onto the final Boss of the STF until we are certain the Tactical Cube is working as intended.