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Sounds like a corrupt layout database to me.
I have had a simular problem with a 4 Layer board that wouldn't open a board because a via padstack 1-14 that was missing...
I copied the \work\Backupdatabase\ to my layout folder and could reopen it but when I saved and reopend I got the error back.
When I viewed the via definition in setup parameters it effectivly said layer 1-14 instead of Trough Via.
I exported the layout database to ASCII and changed the in the ..VIA definitions the text 'LYR_1 LYR_14' to 'LYR_1 LYR_4' and reimported it which fixed the problem.
thanks for your response,
i have tried taking the backup database and open the layout but i did not find the similar problem u faced
as iam doing a 6 layer board my setup parameter show's 1-6 via stackup only