I have created US & UK Windows Vista & Windows 7 keyboard layout files for inputting Arabic transliterated characters in EndNote X3.
Characters are input using the Right Alt and Shift+RightAlt positions. Keyboard layouts are included as well as the original source file.
Users who require further modifications or other languages, may download the Microsoft Keyboard Creator Program and modify the original keyboard source file.
The files are available here with an Instructions file. Unfortunately, I am unable to provide support:
This depends on the system of transliteration used. Kha’ is simply kh. K with dot or Q is qaf. Gentium and most Unicode-enabled fonts do not support directly the transliteration of th (tha’) or dh (dhal). The system of k with dot and th (tha’) dh (dhal) and sh (shin) with subscript lines is employed in the Encycopaedia of Islam (2nd Edition), though not in the third edition. In other words, it’s obsolete.