Not sure what happened. Only thing I did different that I can think of is crashing an unmanned cockpit. Only reason I am doubting my unmanned cockpit theory is that I noticed it on my second launch attempt trying to test the same cockpit and it did not change rep after crashing that one. After I noticed I did go back to check; I don't have any lost Kerbals, I haven't failed any contracts, and I haven't damaged any buildings. I also was not missing any money, at least not that I could tell. I do have both penalties set to x10 (I'm guessing this is how I noticed). I also know that this could be near impossible to track due to the excessive number of mods I have, so this is more of a question of if anyone knows any certain parts or unexpected situations that could possibly have caused this...