The best replacement for small molecules is biologics.

The best alternatives to small molecules are rated as following:
★★★★★  biologics
★★★★  large molecules
★★  antibodies
★★  macromolecules
★  biopharmaceuticals
★  peptides

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No companions for small molecules have been suggested so far.
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Google Trends

Scale is based on the average worldwide traffic of small molecules in all years. Click on graph for more.
small molecules
biologics
large molecules