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18 February 2016 Reply
Thanks for your comment. My initial guess is that you applied the setting only to your Debug config, and your Azure publish will be using the Release config.
I actually need to update this article as there is a UI for it - if you display the Project Properties window, a new TypeScript Build tab will appear - I'm so unused to never seeing the contents of this window extend I never thought to check it when first playing with TypeScript! Regardless, you can use this page to configure the JSX Compilation mode - just change the Configuration option to All configurations, then change the JSX compilation in TSX files to React.
I have a web project using TSX files that I publish to an Azure website and this works fine for me, although I am using Visual Studio 2015 rather than the 2013 you mentioned.
Hope this helps.