The problem is, Wrye Flash for Fallout 3 is a port of Wrye Bash. For sure, with New Vegas I can't use the program unless I grab a Mopy folder just for these two games. For example, this
http://fallout3.nexusmods.com/mods/11336
Now, to get the most elegant install, I install the Stand Alone for Oblivion/Skyrim to get the Python files and what not, but then I drop this package in the Fallout 3 directory and make a shortcut to that bash exe. Also, I remember that one of these archives was not right, but that may have been updated since I last did an install with this game as I did not have the issue this time around.
You will have to do the same for New Vegas Flash.
Worse comes to worse, for this program, you may have to do a manual install of Python and the other 3 supporting programs, then drop the proper Mopy/Data directory into the root folder.