ALL user added content should now be put into the User Data folder, by default this is located at:
\My Documents\Sports Interactive\Football Manager 2007\
(Or whereever you have moved the User Data folder to if you have moved it).
You'll then need to create some subfolders (if the content you downloaded doesn't it for you), first create a graphics folder inside the above folder. Then create a pictures folder inside the graphics folder, next create a logos folder inside the pictures folder for your logos (or kits or faces for kit and faces, for anything else follow the structure from the C

Program Files\Sports Interactive\Football Manager 2007\ folders, but install the content into the My Documents folders).
Now you have your logos folder, unzip/extract the logos you have downloaded and transfer the folders into the logos folder. (As long as the logos are inside the logos folder it doesn't matter what their folders are called - just generally organise so you can find stuff).
Also make sure you transfer over the config files with the graphics, the game needs the config.xml files to display the logos. (You can delete any previews, thumb.db or readme files if you don't want them).
Now when you load up the game you need to go to the Preferences -> Display and sound menu and untick use skin cache and tick the 'Always reload skin on confirm' option.
Now click on confirm/OK, you should get a dialog box telling you that the game is reloading the graphics, wait a while and once it has finished your logos should be working.
If the logos are showing and you are not adding any more graphics then you can turn the skin cache back on and untick always reload skin on confirm.