Well, it's easy enough with Emacs, but Emacs can be somewhat difficult to learn.
You can get it here: http://www.gnu.org/software/emacs/. It is entirely free.
Make a backup of the file before going on, just in case, because it can be annoying to undo everything, and it never hurts to have a backup.
Here is how to do what you want, keystroke by keystroke. For reference, C means control and a dash means it has to be pressed simultaneously (e.g. control+x) while a space means you let go of what you had before. So C-x C-f means you press control+x and then control+f.
Open Emacs and open the file you have. If there is no file/edit...etc bar, you can open a file via C-x C-f (control+x followed by control+f) and entering the file path.
Then press C-x (, which is control+x followed by shift+9. This starts recording your keystrokes, which you can repeat later.
Now press C-s and type "Questions", followed by C-f twice and C-backspace. Now press f3. The number should be replaced by a 0. If you want multiple lines to have the same number, copy the number you just got with C-space followed by C-b and then M-w (alt+w).
With the number copied, you can use C-s again, pressing it twice to go to the next instance of "Questions". Here press C-f twice again followed by C-backspace but now type C-y to paste the number you copied. Repeat this as necessary to go through all the numbers in one question. Each time you repeat this action within that single question, type M-y after it.
Once you are done with the first question, and all the numbers are replaced with 0, you can now just finish recording the macro. Enter C-x ) (control-x followed by shift-0, just like before).
If, at any point, you make a mistake and what to cancel and restart, C-g cancels and C-_ (control + shift + -) undoes.
Now enter C-u 0 C-x e.
If it works, you can save the changes by typing C-x C-s.
What this does is create a keyboard macro to replace the number, execute it repeatedly with a counter (created by f3) incremented each time.
If you manage to make this work (I did, on your example), consider looking into learning how to use Emacs--there is a very nice tutorial that can be accessed when you open Emacs. It takes a bit of effort to learn, but it is worth it.