Although indoor environmental quality (IEQ) and human health have been on the agenda of the green building industry, a new emphasis is being placed on building features that explicitly promote the experience of occupants. However, evidence of the performance of green-certified buildings from the occupant perspective remains inconsistent, with numerous questions on how to effectively design, assess and promote ‘healthy buildings’. Focusing on the key IEQ categories of indoor air quality, thermal comfort, lighting and acoustics, this paper synthesises emerging knowledge related to IEQ and health; identifies research and practical challenges that may impede the performance of green-rated buildings; sets the foundations for researchers and green rating system developers to capture immediate and long-term opportunities; and proposes a new framework for green-certified buildings. The envisioned future of green buildings will need to be based on a thorough knowledge of the building and its users, their inter- and intra-individual variability, their spatiotemporal localisation, their activities, their history of exposures, together with a capacity of anticipation of the likelihood of future events and preparedness for them. A balanced, integrated, consideration of these factors can provide the basis for more effective green building certification systems.