Till yet InDesign CC does not recognize some commonly used Quranic Arabic marks like uni08F0, uni08F1 and uni0F82, though these are added to Unicode several years ago. Images, test file and test font "Uthman" are added.
First image shows these marks.
Second image shows their correct placement above or below the letters in MS Word and the wrong result in InDesign CC.
Test font "Uthman" and test indesign document are attached.