The present investigation was performed to evaluate the variability in the yield and bio-active components of Indian cardamom seed extract from two different ecological zones of the Western Ghats (Pampadumpara and Madikeri regions), India. Results showed significant differences in the yield and bio-active components in two varieties viz. Appangala-1 and PV-2. The variety PV-2 (639 g/plant) recorded significantly higher yield in Pampadumpara than Madikeri (399 g/plant). Significant variability was observed in the bio-active components of the essential oil. The intrinsic quality of cardamom is mainly attributed to two important components α-terpinyl acetate and 1,8- cineole. The highest range of α-terpinyl acetate in both the varieties (41.1-42.4%) under Madikeri region was recorded followed by Pampadumpara region (35.01-40.2%), while the 1,8-cineole content showed highest in Pampadumpara (25.68-37.57%) followed by Madikeri (23.06-32.66%) region. The highest content of linalool, α-terpineol, linalyl acetate and cis-geraniol was recorded in PV-2. The highest content of β-neralidol was recorded in Appangala-1. The variation among the region was significant for terpinen-4-ol, β-myrcene and β-neralidol. Pampadumpara region received 47% and 18% more rainfall during North east monsoon (October to November) and summer shower (December to May), respectively though received less rainfall during South west monsoon (71%) and also showed 10% more rainfall distribution compared to Madikeri region. The annual mean maximum temperature (Tmax) was 18% more in Madikeri compared to Pampadumpara region. With all the environment factors taken into account, Pampadumpara region is relatively better in terms of cardamom capsule yield and Madikeri region for bio active components which attributes intrinsic quality of capsules.