So, I started the single player the other night and got just past the point where you kill your first alien and get nano-points to upgrade your suit. After that I ran around a bit looking for collectibles and then quit. I resumed my game today and it was at the part where you fight the first alien again. I killed him and collected the sample/points. When I opened the menu I already had the upgrade I bought the first time, AND had the 100 nano points for killing him. So yeah, apparently killing him and reloading my game kept my upgrade, but reset the dude. Dunno is this has been posted before, did a search and didn't find it.