Soil carbon (C) loss is the prime sign of land degradation, and C pools have a great impact on soil quality and climate change mitigation. Hence, a field experiment was conducted for three consecutive years to assess the impact of crop intensification and conservation tillage practices on changes in the C pool at different soil depths of marginal land of the Indian Himalayas. The experiment consisted of two intensified cropping systems viz., CS1-Summer maize (Zea mays L.) -rainy season maize-lentil (Lens esculenta L.) and CS2-Summer maize-rainy season maize-mustard (Brassica juncea (L.) Czern) and five tillage practices viz., No-till (NT); NT+live mulch of cowpea (NT+LMC); reduced tillage (RT); RT+LMC and conventional tillage (CT). Results revealed that CS2 produced significantly higher biomass, C retention efficiency (9.85%), and sequestrated greater C (0.42Mgha-1 yr-1) in the soil system than CS1. Of the various tillage practices, RT+LMC registered higher biomass and recycled greater biomass and C than those under other tillage practices. However, the highest soil organic carbon (SOC) content (7.03gkg-1) and pool (9.62Mgha-1) in 0-10cm depth were observed under NT+LMC. The non-labile C pool size under NT in 0-10cm and 10-20cm depths was significantly greater than those under CT. The NT+LMC sequestrated significantly higher SOC (0.57Mgha-1 yr-1) than other tillage practices. Thus, the study indicated that the adoption of an intensified maize-based system under RT+LMC or NT+LMC would increase SOC storage and C sequestration in marginal lands of the Indian Himalayas.