Since you do not have a bootable Windows system and your Windows installation is not working, you cannot use any disk cloning tools (those would clone your broken Windows installation too). The easiest option would be to use a Linux Live installation on a USB drive.
- Download any flavor of Linux as a Live CD image (maybe Ubuntu or Linux Mint).
- Put that Live CD image on a USB drive (a pen drive or external drive).
- Boot from the USB drive.
- Copy files from your
Users directory (usually C:\Users\username) to the external drive.
- Keep a note of all the applications that you have installed.
- Install Windows afresh using the recovery option.
- Install all the applications that you had earlier (there's no way to transfer applications safely on Windows unless a full disk clone is being done).
- Run the applications at least once and close them (this is to ensure that they create their default settings). Do not go to the next step without completing the previous step and this one!
- Copy everything from the backed up user directory on your external drive to restore your applications' settings as well as your data.
You will then have all your applications with whatever configuration you had before. But any Windows configuration you had done (like networks, appearance, printers, devices, etc.) may be lost and would have to be done again.
As an additional safety measure, I would recommend that you also have a complete (and separate) clone of your drive using a tool like Clonezilla Live or Redo Backup & Recovery.