Finally It Works, I swear I Looked at this before but after a good hour this morning it finally works!
Im not sure if it was hard to understand or if I was just being super dumb but it actually took a bit of effort on my part, But once the way to construct patterns was clear in my head then it all made sense,
I shall do a quick walk through below just in case it helps in the future,
So as you can see from my First Post my Tv Shows are Named as follows
Show Title SXXEXX Episode Title.m4v
E.g.> Sons of Anarchy S02E04 Eureka.m4v
So What I understood from reading the help was to create a *custom token* for each attribute,
This is done via setting a rule for If Name Matches, Once you click in the text box next to this it opens with the following

Next Select Custom Text

Now we will create the *custom token* for each attribute
I have split them into 3 attributes required for what I need
1) Show Title - Eg. Sons of Anarchy
So in the Name, you can call it what you want, I have kept Show Title so I can understand later, And then in the box below the element to add is *anything*

This will allow the rule to run for non-specific TV Shows
2) Episode ID - Eg. S02E04
So in the Name, you can call it what you want, I have kept *Episode ID* so I can understand later, And then in the box below the element to add is different that above,
I have Gone with S Number Number E Number Number

This way if a TV show has a title with more than one word and not the first word starts with S it wont get confused.
3) Episode Title - Eg. Eureka
So in the Name, you can call it what you want, I have kept Episode Title so I can understand later, And then in the box below the element to add is *anything*

So Now your Pattern should look like this

Note that I have highlighted the 2 spaces which I use to separate the items in the file names, If you use a . then change the spaces for .
Next in The *Do the Following to the matched file or folder* add the actions you want
So for me its *Sort into Subfolder* The select the Pattern Show Title (show in the image)

And that's all you need,
Hope this helps anyone who needs it