The bolts I was talking about are the two at the bottom of every strut that attach the strut to the knuckle. The back ones are alot easier then the front struts, because the struts and springs are seperate: therefore no spring compression is required on the rear struts.

I'll have to take a closer look to see what you mean but it seems pretty straightforward.

About detaching the top of the strut from the car: I see three bolts at the top of the strut tower in my engine bay, is this all I need to unbolt to remove? Will I need to remove the carpet from the trunk to detach those?
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The three on the top of the fronts is indeed all that you need to remove on the tops of those (mark the position of the nuts in your shock tower). Then you will need to remove the two strut to knuckle bolts on the bottom. For the rear struts, you only need to remove the top part of your wheelwell carpets in the trunk. There are two nuts on the upper strut mounts for each rear strut. You will have to stretch your arms and you wont be able to see what you are doing but you can feel around and loosen them with a wrench. They arent torqued much at all. The rears are a piece of cake.

Yes it does. With the auto load leveling rear suspension.
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You don't want the Monroe quick-struts for your F41 suspension. The included springs are not right for you, they are more along the lines of FE1 specification.