The best replacement for indigo carmine is methylene blue.

The best alternatives to indigo carmine are rated as following:
★★★★★  methylene blue
★★  indigo

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No companions for indigo carmine have been suggested so far.
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Google Trends

Scale is based on the average worldwide traffic of indigo carmine in all years. Click on graph for more.
indigo carmine
methylene blue
indigo