I see now what you meant with odd about the clock (I think GNOME's reasoning is that you can get the month and date information from the calendar). gnome-tweak-tool has switches for adding the month and day, and also displaying the seconds in the clock; you might want to check that. You can disable dynamic workspaces and change the number of them with it too.
I completely agree things should be a lot more clear about the extensions operation and the website too.
The workspaces behavior is fine for me because i never have that many windows open, but I completely understand it doesn't scale well for your usage. Actually, I use https://extensions.gnome.org/extension/503/always-zoom-workspaces/ to have the workspaces always visible instead of having to move the mouse all the way to the right (To switch windows I liked using https://extensions.gnome.org/extension/317/window-display/ so I could search for window titles, but it hasn't been updated to 3.6). A pager like what you proposed would be a nice extension for gnome-shell, and I think it would be entirely doable.
In some things, I agree things can be much better (and I'm interested in why you find the date format odd). In others, you're just unused to the way things work with extensions.
1) If you go to "Installed extensions" on the website, you'll see an icon besides the toggles for enabling/disabling the extensions. If you press it, it will launch an application that exposes the settings for it. I tried to set the grid you suggested (3x9) with it, and it worked. This application can be launched from the desktop too, it's called `gnome-shell-extension-prefs`.
2) Extensions installed from the website are always installed in ~/.local/share/gnome-shell/extensions/ and removing them locally is as simple as deleting the folder and reloading the shell (I know this is not ideal, and it's not mentioned in the website).
3) Errors can be inspected from the "Looking Glass", which you can launch pressing F2 and entering "lg" in the run dialog that appears. You then go to "Extensions". Under every extension listed there is a link that says "Errors", that should show you give you some feedback. To close the Looking Glass you just press Escape. From the looking glass you can inspect the shell innards through a javascript REPL (there's a tool in the left hand you can use to select a piece of the shell and inject it into it---i'm not sure this description is very clear, but you should try it.). Most errors I've had installing extensions have been caused by version incompatibilities; if the website didn't get what version you were using it will show you incompatible extensions, and even if it does, it will let you try to install incompatible versions and not display any errors (I guess because the communication between the browser and the shell is not bidirectional).
I think the whole enabling/disabling extensions mechanism should be integrated on the shell somehow, instead of delegating that work to the website, that isn't too intuitive/doesn't explain things too wee (neat as it is, when things do work).
Anyway, it's too bad it didn't work for you, I hope if you give it a chance again in the future (you might not) these things are ironed out.
You would love gnome 3, then. It doesn't have any sort of "rotating/rolling/whatevering windows" and gadgets by default, and it is actually designed with with focus in mind (you can disable notifications, for example), and it encourages to have few windows in the same viewport (at least at the resolution I use it commonly, 1366x768). It has minimal tiling, so you can easily have windows open along side, etc. The 3D stuff is mainly for some visual details, like real transparency in some parts of the desktop (like notifications), window shadows, window borders smoothing, the shell modal dialogs (the desktop is dimmed around them), live window updates in the overview (which is kinda like OSX exposé).
The only lag I find sometimes is IO related, because I have tracker and zeitgeist integrated to the overview search and the disk is read when I look for stuff. The 3D stuff is never a bottleneck.
My sister opened a computer store in Hawaii. She sells C shells down by the seashore.