To run the factions you currently have installed you need to also install a plugin called mcore. Mcore is kinda like the main plugin that faction needs. After you have both plugins installed, restart your server. In the main server directory you should see a folder called "mstore", this is where all the config files and player data files are stored for factions.
If you need any more help then PM me ill gladly skype you and screen share untill the problem is resolved!
-----
Michael (Head-Support Agent)
http://BuildCraftIndustries.net
