When ever you make a wall you need to add the offset information so that the wall is centered correctly. Save the new wall as a *.FRM file, using a program such as Frame Animator, but make sure you use the edit the Frames Offset with the wall offsets at the bottom of this artical.
Offset Summary Edit
The offset is the 'x' and 'y' shift of the art object in pixels, this is used to align the wall segment in the correct location within the hex. If you use these templates you can just use the given offset values for any new walls you make. The offset file should use the following format.
X = A postive number will shift the image to the right and a negative will shift it to the left.
Y = A Postive number will shift the the image down and a negative number will shift it up.
Master Templates Edit
Take each of these templates and overlay them onto the desired wall texture, then over lay each of wall sections onto of each other. You will end up with a selection of walls as like in the example below. When you are selecting the textures to use I found it easier to pick one texture and then just adjust the brightness of the image so that you have three different levels of contrast. The brightest texture should be the top of the walls.
Wall Templates Edit
Corner Templates Edit
Wall Intersections Edit