i would suggest you start with the scale theory sections, and the chord theroy setion. another thing you really need to learn that helped me the most in theroy is the circle of fifths. look it up here or google it.
learn your scales:
major
minor
pentatonic
exotic
and your modes (this is where the circle gomes in handy the most)
and the others ones
learn your chords:
major
minor
dom
aug
7th
9th
11th
13th
and the other ones.
most of this stuff you can learn to cheat on. by learning the formula you can 'make' your own chords and scales(they probable already exist somewhere else). it will help you think about the fretboard in new ways.
thats a pretty good place to start but you might ask one of the instructors to narrow down where.
one last note since im working on this too, take little bites. youll do a whole lot better if you dont overload your brain.
They say the END is near, but I'm Tired of waiting.