Plankton ecologists ultimately focus on forecasting, both applied and environmental outcomes. We review how appreciating planktonic ciliates has become central to these predictions. We explore the 350-year old canon on planktonic ciliates and examine its steady progression, which has been punctuated by conceptual insights and technological breakthroughs. By reflecting on this process, we offer suggestions as to where future leaps are needed, with an emphasis on predicting outcomes of global warming. We conclude that in terms of climate change research: i. climatic hotspots (e.g., polar oceans) require attention; ii. simply adding ciliate measurements to zooplankton/phytoplankton-based sampling programs is inappropriate; iii. elucidating the rare biosphere’s functional ecology requires culture-independent genetic methods; iv. evaluating genetic adaptation (microevolution) and population composition shifts is required; v. contrasting marine and freshwaters needs attention; vi. mixotrophy needs attention; vii. laboratory and field studies must couple automated measurements and molecular assessment of functional gene expression; viii. ciliate trophic diversity requires appreciation; and, ix. marrying gene expression and function, coupled with climate change scenarios is needed. In short, continued academic efforts and financial support are essential to achieve the above; these will lead to understanding how ciliates will respond to climate change, providing tools for forecasting.