Making the objects transparent or invisible after updating from the Kendo UI version 2016.2.504 to 2016.2.714 is not a known issue.
I can assume that some of the files were opened or locked during the update which can prevent the updating process for those files.
Please check our tutorial on how to update the Kendo UI version using the wizard:
Additionally, I can suggest to manually update the resources and to make sure that all of them are referenced to the same version of Kendo UI.
If this is not helpful, please send a runnable solution so we can investigate it further.
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