Tropical carbon emissions are largely derived from direct forest clearing processes. Yet, emissions from drought-induced forest fires are, usually, not included in national-level carbon emission inventories. Here we examine Brazilian Amazon drought impacts on fire incidence and associated forest fire carbon emissions over the period 2003–2015. We show that despite a 76% decline in deforestation rates over the past 13 years, fire incidence increased by 36% during the 2015 drought compared to the preceding 12 years. The 2015 drought had the largest ever ratio of active fire counts to deforestation, with active fires occurring over an area of 799,293 km². Gross emissions from forest fires (989 ± 504 Tg CO₂ year⁻¹) alone are more than half as great as those from old-growth forest deforestation during drought years. We conclude that carbon emission inventories intended for accounting and developing policies need to take account of substantial forest fire emissions not associated to the deforestation process.

Approximately 2.5 × 10 ⁶ square kilometers of the Amazon forest are currently degraded by fire, edge effects, timber extraction, and/or extreme drought, representing 38% of all remaining forests in the region. Carbon emissions from this degradation total up to 0.2 petagrams of carbon per year (Pg C year ⁻¹ ), which is equivalent to, if not greater than, the emissions from Amazon deforestation (0.06 to 0.21 Pg C year ⁻¹ ). Amazon forest degradation can reduce dry-season evapotranspiration by up to 34% and cause as much biodiversity loss as deforestation in human-modified landscapes, generating uneven socioeconomic burdens, mainly to forest dwellers. Projections indicate that degradation will remain a dominant source of carbon emissions independent of deforestation rates. Policies to tackle degradation should be integrated with efforts to curb deforestation and complemented with innovative measures addressing the disturbances that degrade the Amazon forest.

Tropical secondary forests sequester carbon up to 20 times faster than old-growth forests. This rate does not capture spatial regrowth patterns due to environmental and disturbance drivers. Here we quantify the influence of such drivers on the rate and spatial patterns of regrowth in the Brazilian Amazon using satellite data. Carbon sequestration rates of young secondary forests (<20 years) in the west are ~60% higher (3.0 ± 1.0 Mg C ha⁻¹ yr⁻¹) compared to those in the east (1.3 ± 0.3 Mg C ha⁻¹ yr⁻¹). Disturbances reduce regrowth rates by 8–55%. The 2017 secondary forest carbon stock, of 294 Tg C, could be 8% higher by avoiding fires and repeated deforestation. Maintaining the 2017 secondary forest area has the potential to accumulate ~19.0 Tg C yr⁻¹ until 2030, contributing ~5.5% to Brazil’s 2030 net emissions reduction target. Implementing legal mechanisms to protect and expand secondary forests whilst supporting old-growth conservation is, therefore, key to realising their potential as a nature-based climate solution.

Deforestation is the primary driver of carbon losses in tropical forests, but it does not operate alone. Forest fragmentation, a resulting feature of the deforestation process, promotes indirect carbon losses induced by edge effect. This process is not implicitly considered by policies for reducing carbon emissions in the tropics. Here, we used a remote sensing approach to estimate carbon losses driven by edge effect in Amazonia over the 2001 to 2015 period. We found that carbon losses associated with edge effect (947 Tg C) corresponded to one-third of losses from deforestation (2592 Tg C). Despite a notable negative trend of 7 Tg C year⁻¹ in carbon losses from deforestation, the carbon losses from edge effect remained unchanged, with an average of 63 ± 8 Tg C year⁻¹. Carbon losses caused by edge effect is thus an additional unquantified flux that can counteract carbon emissions avoided by reducing deforestation, compromising the Paris Agreement’s bold targets.