@tizerist: I think you're not supposed to have both installed for the same game. I have both right now, FOMM intsalled after I had installed NMM, and they seem to be working so far but I haven't tested it much. I'm using FOMM for FNV, which I have set NMM to not recognize. Anyway, Gopher made a vid on the subject and I think I'll check it out later.
@Risewild: yeah, I've set NMM to not check for both of those things and it gets blocked forever still with FNV for some reason. It never did in the past, TTW included, so I don't know what's going on.
FOMM has never ever given me the headaches that NMM does on a regular basis. Is there no way to get it to work for Skyrim?!? >:)
edit: so yeah, it (the problem with having both) boils down to opening a Fallout game with NMM after you have FOMM installed, as NMM overwrites an xml file that FOMM depends on and then won't work without it. You can fix it by deleting the install log xml, and then rename one of the bak logs by taking off the bak and basically replacing the log that way, and restarting then FOMM (was that confused enough or what, how I wrote that...sheesh) and it should work.