I'm not a patent lawyer, but from a user perspective Gnome 2 was as far from Windows as any GUI that I've ever used, except perhaps Windows 3. I was originally using Mandrake (later Mandriva), and the default install included both KDE and Gnome (it was a big stack of CDs).
KDE was very Windows-like, and I had no difficulties adapting to it.
Gnome 2 on the other hand seemed to be from another planet and I would look at it, find the concepts alien, and then go back to the very Windows-like KDE.
However, Mandrake/Mandriva started going down the tubes (new management brought in by investors), and I had to find an alternative. After evaluating what was out there, I settled on Ubuntu. The default desktop for it was Gnome 2, so I decided to suck it up and get used to it, learning it bit by bit on Mandriva until the day I was ready to make the big jump and install Ubuntu instead.
Gnome 2 was alien, but it was actually pretty good, once I got used to it. I wasn't afraid to try something new, and I felt that Gnome 2 was actually easier to use than Windows in terms of getting things done.
However, Gnome 3 was a different story. Instead of just being an adaptation of Gnome to the new GTK version, they decided to exercise their creativity and strike out in a "bold new direction" in user interface concepts. This was the classic example of group of programmers trying to be innovative UI designers and not really understanding how the average person thought or interacted with a computer. The result was a design which required a lot of mouse movement from one side of the screen to the other to get anything done. Using early Gnome 3 for an extended period of time has been compared to be like sawing wood.
As for Unity, they dropped broad hints which said the UI designer contracted by Canonical (the report was published and free to use by anyone) had in fact been heavily inspired by Apple Mac. This wasn't just a matter of the window control buttons being on the left, but also the function (although not location) of the dock and other things. They didn't say it outright though, as that would invite lawsuits from Apple. I can't give you a source for this, but I did read about it in various articles. I wasn't familiar enough with Apple Mac to make that connection myself.
When the Gnome 3 developers finally realized that they were on course to being a footnote in computer history and put their misguided "creativity" back in a box on the shelf, then it started becoming more like Unity.
When Gnome 3 progressed far enough, Ubuntu was eventually able to ship a version of it with extensions that made it very similar to Unity. I found the transition from Unity to Gnome 3 completely seamless as a result. I still put the window buttons on the left though, as that makes more sense from an ergonomic perspective (most of the other things the mouse needs to do are also on the left).
Two explanations have been given for the dock being on the left side of the window in Unity (and later in Ubuntu flavoured Gnome). According to the pundits it was to avoid lawsuits from Apple. According to Canonical it was because modern monitors were much wider than they were tall, so the Unity UI design contractor said it made more sense to use horizontal screen space than vertical screen space. I suspect the latter is the correct reason. It does make more sense to have it on one side of modern wide monitors.
As for the Windows keyboard UI, that was copied from OS/2 when that was a joint project with IBM, and cane from inside IBM as CUA (Common User Access Guidelines). This was intended to provide a common user experience across IBM's product line, from mainframes (I don't know how that was supposed to work), to minis, to Unix workstations, to PCs. Microsoft kept that when they split off and went in their own direction with Windows.
You can find IBM CUA if you google for it. It was considered to be public spec which was free for anyone to use. It's no surprise that Linux distros implemented it instead being different for the sake of being different.