Some corrections lost on save with Unicode font

Hi,
Has anyone had this problem? I have been working on a 300 page document using a Tibetan font as well as English for over a year now and we are on the final corrections. The editor mentioned that I seemed to be only half correcting some of the wrongly typed Tibetan words, which I thought odd. In order to correct a few letters in Tibetan I first highlight, then re-type and then I always save, as one does. If the word is still highlighted when I save (i.e. I have not clicked elsewhere on the page) then there is a chance that part of the corrections are not saved - I saw one of the letters disappear in front of my eyes! This must be a bug, surely?
It does not occur with English, only in Tibetan (in my experience, I have not tried other languages) and only it seems when I am typing a 'stack', i.e. one letter on top of the other, and then, if the highlight is still showing (it is yellow in this case not the usual blue) when I go to save, one of the letters disappears. If I go on to type more letters then the highlight disappears and there is no problem. I expect you can imagine the sense of frustration I feel that the editor and I have doubtless been continually repeating corrections throughout the document!
And while on the subject of saving, I cannot save in Pages 3 - and could not in Pages 2 either - using the command+S shortkey, which naturally works in every other program on my computer. It takes extra time and effort to have to save from the file menu each time. Does anyone have any suggestions why this is the case?
Best wishes
Ynys

Yvan wrote:
Which keyboard layout are you using when you type in Tibetan?
I toggle between XenoType Tibetan and Wylie from Chris Walker at http://www.tibetanportal.com/#keyboards. That means I can sometimes use both within a single word.
The save oddity may be linked to a "special" keyboard layout.
If you already own an application allowing us to link shortcuts to a script, I would be able to write an AppleScript whose task would be to save the frontmost document without using the cmd S shortcut.
I don't understand what you mean. I would actually prefer to do Command+S because then I would not be taking my eyes off the word, which is what has been happening I think, or I would surely have noticed earlier what was happening.
Ynys

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