To those that are still having the save issue, make the .bat file as described on the first page of this thread. Just open Notepad, copy the code from the post below (putting your steam uid number in place of [EDITME]) and when you save it, set the type as "All Files" (as opposed to text document) and save it as any filename ending in .bat . Then put that file in the directory where FalloutNV.exe (for me this is C:\Program Files (x86)\Steam\steamapps\common\fallout new vegas). Now, when you double-click this file a small script will run (you'll see a command prompt window open briefly) and the Fallout will start just as if you had clicked the shortcut. Then you can create a desktop shortcut to that file and even change the icon and it will function just like a shortcut. This has completely resolved my problems with auto and quick saves, and you don't even have to turn off steam cloud.
originally posted by Lady Nibenay
Yes, steam is tracking saves.
Make the following bat file:
cd ..
cd ..
cd ..
cd userdata
cd [EDITME]
cd 22380
cd remote
del *.fos
del *.ini
cd ..
cd ..
cd ..
cd ..
cd steamapps
cd common
cd fallout new vegas
falloutnv.exe
replace [EDITME] with your steam uid number, which you'll find in steam\userdata. Save this .bat file in your fallout new vegas directory, inside steam\steamapps\common, and run it like you would a game shortcut--every time you want to play. Your quick and autosaves will be fine.