Firstly, if at all possible, I'd try to get the job done with just the shear wall segments between #1 and #2 (Maybe even just left of the door). Based on what I'm seeing, that looks workable and would probably be a lot simpler to deal with.
Secondly, as an out there kind of idea, you could combine your scheme with little vertical trusses that extend from your shear strut down to the foundation. This would circumvent the aspect ratio business. How you would reconcile this approach with code provisions is the part that I would struggle with. I've seen trussed shear walls in California though so it's clearly possible.
On to your actual questions:
BSVBD said:
If i provide a "Shear Strut" header above those windows, can i use the area above the windows as a portion of my shear wall between wood columns 1 & 4?
I think so. I question the effectiveness of the approach however. You'd still have to deal with 100% of your shear in the wall segments either side of the kennel windows. Additionally, what you'd be doing here is essentially creating a moment frame system with a rather long beam. As with ordinary moment frames, effectiveness drops off pretty quickly when the beams start to get long.
BSVBD said:
Do i need to to provide holdown anchors at the base of wood columns 2 & 3 in addition to holdown anchors at the base of wood columns 1 & 4?
Quite possibly. #2 and #3 will be involved in resisting some of your overturning (like a coupled concrete shear wall). If overturning results in tension, you'll need the hold downs.
BSVBD said:
Do i need to apply any portion of the total shear wall reaction at that strut / header vertical elevation, parallel to the X-X, to those wood columns 2 & 3?
The usual way to do this is to run your shear strut past the opening at #2 and #3 to develop as collectors into the wall sheathing on either side. Obviously, you've got limited space for that. I suppose that you could deal with the forces as weak axis bending in the columns at #2 and #3 but that would tax the columns pretty severely.
I like to debate structural engineering theory -- a lot. If I challenge you on something, know that I'm doing so because I respect your opinion enough to either change it or adopt it.