Phytoplankton light absorption spectra (aϕ(λ)) were measured in the Canadian Arctic (i.e., the Amundsen Gulf, Canadian Arctic Archipelago, northern Baffin Bay and the Hudson Bay system) to improve algorithms used in remote‐sensing models of primary production. The absorption by algae, dominated by picophytoplankton (<5 μm), was not the major light absorption factor in the four provinces; the colored dissolved organic matter (CDOM) contributed up to 70% of total light absorption. During the fall, the low total chlorophyll a‐specific aϕ*(443) (aϕ(443)/TChl a) coefficients of the Canadian High Arctic were associated with photoacclimation processes (i.e., the package effect) occurring in light‐limited environments. Low light availability and high proportion of CDOM (absorbing strongly the ultraviolet) seem to allow the growth of phytoplankton with accessory pigments absorbing light at longer wavelengths. The ratio of photoprotective and photosynthetic carotenoids (PPC:PSC) was inversely proportional with the salinity and the cell size, and mostly decreases throughout the Canadian High Arctic during fall. In return, the highest TChla‐specific phytoplankton light absorption coefficients at the blue peak (aϕ*(443)) were observed in the Hudson Bay system from September to October (i.e., fall) as well as in the Amundsen Gulf from May to July (i.e., spring/summer). These results will ultimately allow the accurate monitoring of phytoplankton biomass and productivity evolution that is likely to take place as a result of the fast‐changing Arctic environment.