Can't tell if you are running the steam version or not... You may be using a wrong version or another. FOMM, FOSE (and NVSE), and the FO executables often do extremely annoying things to each other when one or another is of a wrong version. I know that I got a new version of FONV via Steam on the 14th. A new version of NVSE came out on the 16th. Not sure about FOMM yet, but it's working for me atm. Alternatively, re-install the game and re-download all your mods. The third option is ripping your hair out systematically. I recommend one of the first two.