The increasing effects of climate and global change oblige ecosystem-based management to adapt forestry practices to deal with uncertainties. Here we provide an overview to identify the challenges facing the boreal forest under projected future change, including altered natural disturbance regimes, biodiversity loss, increased forest fragmentation, the rapid loss of old-growth forests, and the need to develop novel silvicultural approaches. We specifically address subjects previously lacking from the ecosystem-based management framework, e.g., Indigenous communities, social concerns, ecological restoration, and impacts on aquatic ecosystems. We conclude by providing recommendations for ensuring the successful long-term management of the boreal biome facing climate change.