This dataset provides concentrations of pigments in pine and spruce needle tissues collected at the Niwot Ridge AmeriFlux Core site (US-NR1) near Nederland, Colorado, USA, during the summers of 2017 and 2018. Pigments measured included Chlorophyll A and B, Violaxanthin, Antheraxanthin, Zeaxanthin, Neoxanthin, Lutein, and beta-Carotene. Measurements were made on sun foliage from two canopy-access towers near the main flux tower, and in the laboratory on branches collected from those towers, every 4-8 weeks over the annual cycle. Due to canopy structure, a limited number of trees were accessible from the towers, preventing extensive replication. Pigments were extracted in acetone and analyzed by HPLC. The measurements were made to evaluate seasonal changes associated with the down-regulation of photosynthesis.