It is certainly possible to remove the holder, fill the holes with epoxy and re-drill them slightly offset, so this can be fixed. The question now is if it is necessary, if they are only slightly crooked and it is more a mental thing than anything else (meaning they are mounted straight and once in-game you don't notice it), I'd say keep em as they are.
I recently moved from Make 2 (2 seasons) to Vapor 1x (1 season) to a second-hand VH skate that just happens to fit me decently, and I love them so much my next pair will be my own custom True skate. Take the "horror stories" with a grain of salt, very few (if any) people reported on issues with the fit so severe as the current case but that one spans the last few pages of the discussion.