Ginkgo biloba is a living fossil and traditionally known as a source of pharmaceuticals and cosmetics, largely because of the lipids in the kernels. In the present study, fatty acids, triacylglycerols, micronutrients, and oxidative stabilities of G. biloba kernel oils from four major different cultivated regions in China were systematically analyzed. The results showed that the kernel oils contained more than 26 triacylglycerol species with high contents of linoleic acid (42.04–43.01%), oleic acid (14.33–18.00%), and trans‐vaccenic acid (15.13–16.86%). Functional fatty acids such as trans‐vaccenic acid, palmitoleic acid, and podocarpic acid were particularly enriched in the oils. In addition, high levels of tocopherols (173.41–272.18 mg/100 g) and 304.09–673.26 mg/100 g of phytosterols in the oils contributed to significantly improve their oxidative stabilities. In particular, α‐tocopherol (106.63–127.35 mg/100 g), γ‐tocopherol (41.41–133.65 mg/100 g), campesterol (53.22–139.88 mg/100 g), and β‐sitosterol (245.50–522.62 mg/100 g) were the dominant micronutrients; while γ‐tocopherol significantly affected oxidative stabilities of the four oils from different regions. It is suggested that the G. biloba kernel oils are ideal sources for high‐valued usages in skin care purpose, physical therapy, functional food, and nutritional supplements.