Originally Posted by: BrokenJeraim looking for some advice on how i can get my scale theory to include the whole fretboard.[/quote]
Seen these?
http://www.guitartricks.com/tutorial.php?input=185
http://www.guitartricks.com/tutorial.php?input=296

If so, try these:
http://www.guitartricks.com/tutorial.php?input=419
http://www.guitartricks.com/tutorial.php?input=462

In a nutshell, what helps the most is being able to recognize and use patterns of octaves that repeat over and again.
[QUOTE=BrokenJera]
so i guess im looking for some exercises or riffs i can use the help build up my brain to think of scales in that way.

Try to use the examples in those tutorials. Also, try to link smaller segments of the pentatonic boxes together by shifting positions. Example:

E |-8-5-------5-8-/s/-10-8----------8-10--|
B |-----8-5-8--------------10-8-10--------|
G |---------------------------------------|
D |---------------------------------------|
A |---------------------------------------|
E |---------------------------------------|

Repeat with two different strings and all boxes!