[Marde]

Yuk! What a mess huh?

My first thought is; wires are chaffing and shorting out a couple/several circuits, causing all those fuses to blow. I would pull the battery out and do an extensive visual inspection of the wiring in the engine bay. One set of eyes doing this sometimes misses, so both of you try to find the bad, burned, ugly wires separately. Grab and move some of the wiring to get different views.

You might also consider checking wire health here->
http://www.focusfanatics.com/forum/showthread.php?t=323413

New aftermarket alternators will sometimes fail when still new. Alt pigtail might have splices that are defective. You might want to Re-splice or replace your Alt pigtail.
http://www.summitracing.com/parts/pco-5716pt/overview/

 

[Marde]

In your situation, to lessen further damage and to help in isolating the problem; it might be a good idea to temporarily remove some of the fuses that control accessories like Wipers, Brake Lights, Horn, Cig Lighter, Head Lights, Radio...

 

[ajacquez]

yes. a mess to say the least, and frustrating, i miss my focus. i will have to try this. thank you. will post again if i need anything further. thanks again.

 

[ajacquez]

my first thought about the situation was: we just moved from new mexico shortly before this happened and the moisture got in there and messed with wires. i will definitely take a look at it tonight. thanks again.