Hey Julian, those are all some really good questions and completely understandable hurdles for someone coming from the Sketchup environment.
Let me start off with the learning content question. There is no one currently writing a book that I know of but there is a LOT of learning content out there for Fusion. When you say you have gone through the tutorials, have you done just the in product tutorials (the lamp) or have you gone through the broader course which includes examples like the box cutter? If you haven't done the latter, you can see a full list of our learning content here and that would provide a great start and a very solid foundation:
http://fusion360.autodesk.com/learning/learning.html?guid=GUID-CC9A8E39-356C-43EA-9EDD-0E9C1321E0F2
We also have a very content rich youtube page with many videos on specific topics to help you out. It can be found here:
https://www.youtube.com/user/AutodeskFusion360
In addition to our own content, Companies like Solid Professor (http://www.solidprofessor.com/training-plans/autodesk-fusion-360/), Solidbox (https://www.solidbox.tv/software/fusion360/) and Plural Site (https://www.pluralsight.com/courses/getting-started-modeling-fusion-360-2271) are creating their own online learning curriculums for Fusion right now.
A lot of the non-Autodesk content is free but some has a cost associated with it. Its definitely worth checking out though.
As for your specific questions, let me see if I can tackle those as well:
1) If you edit something in the timeline you are effectively editing that command at the point in time where it was created and it will then recalculate and could affect any number of commands that came after it if they reference the resulting geometry.
2) When using the combine command with the cut option you can have two different results. In my attached screen shot (combine.png), the Cube is Body1 and the Sphere is Body2. The cube is selected at the target body and the sphere is selected as the tool body. In this case, with the options exactly as you see the result will be that the part of the sphere that touches the cube will be removed from the cube and the sphere body will be consumed. So in essence, you will be left with Body1 only and it will be a cube with a half-sphere cutout in it. If you change the highlighted option for "Keep Tools" the result on the cube will be the same, but the sphere will not be consumed. So you will have a Cube with a half sphere cutout AND the sphere.
3) A body in general is the definition of a volume (or a surface) based on a number of operations and that volume (or surface) has 0 degrees of freedom in reference to other bodies and does not show up in a BOM as a part. Any body can be turned into a component and when you turn something into a component, you then give it 6 degrees of freedom in relation to other components and you can lock down those degrees of freedom as you see fit (think creating the motion for a mechanism) and Components now become active entries in a BOM.
Hopefully that clears things up for you a little bit but if not, let me know and we can dive a bit deeper.
Thanks,
John
John Peros
Technical Specialist Fusion 360