In July 2017, 40 Indonesian civil society organisations issued a statement about violations of several labour regulations by PT Sawit Mas Sejahtera, a wholy-owned subsidiary of GAR. Contract workers are not being paid for overtime, are subject to unfair dismissal and receive no severance payments. The Ministry of Labour and Transmigration has reportedly confirmed the validity of these complaints.

AMRC and Sawit Watch investigated in 2017 the labour conditions among two of GAR’s subsidiaries, Tapian Nadenggan and Mitra Kary Agroindo, in Central Kalimantan. They found low wages, bad living conditions for contractual workers and a lack of health and safety protection for many of the workers. Especially woman are hired as casual daily-paid workers which means that they are not entitled housing or health insurance and have to buy their own protective equipement and work tools. Many of these casual workers have to work with chemicals without receiving training or information on the hazard and how to deal with these chemicals. After an accident with a truck of PT Tapian Nadenggan, injured workers did not receive medical treatment or insurance. In addition, results of medical tests are not shared with the workers.

A study of Forest Peoples Programme (FPP) showed in 2013 that GAR was in multiple violation of RSPO's requirements that lands only be acquired from indigenous peoples and local communities with their free, prior and informed consent (FPIC).  FPP filed a complaint in October 2014 with the RSPO against GAR subsidiary PT KPC over landgrabbing without land tenure study and participatory mapping. In addition, GAR's subsidiaries are acting in violation with the New Planting Procedure (NPP) by submitting information which they know is false. The RSPO upheld the complaint in March 2015 and required that Golden Agri Resources provides a 1,000 hectares of smallholdings to the Dayak and Melayu communities whose lands it took over for the development of oil palm plantations by its subsidiary PT KPC. In august 2018 FPP and TUK Indonesia filed new complaints for the lack of progress.

A Greenomics report from May 2015 shows that in the first quarter of 2015, GAR was the main buyer of CPO produced by a company group, PT Austindo Nusantara Jaya (ANJT) that continues to extensively clear high carbon stock (HCS) forest in West Papua province to date. According to a Mongabay article, GAR announced it would stop sourcing from ANJT at the end of May 2015.

In December 2009, GAR's subsidiary PT SMART was criticised by Greenpeace for its violation of the RSPO standard. In a report citing specific violations, Greenpeace alleged that subsidiaries of PT SMART were carrying out forest clearance prior to receiving the correct permits. It accused the company of burning, clearing and draining areas of deep peat, causing massive green-house gas emissions, destroying orang utan habitat and illegally clearing lands without environmental impact assessments and without other permits. In 2010, the Roundtable on Sustainable Palm Oil (RSPO) reviewed these allegations.

Under Indonesian law a company or corporate group may not hold more than 100,000 hectares of land in Indonesia. Forest Peoples Programme and  TUK Indonesia filed a complaint with the RSPO since GAR is owning over 300,000 hectares of land in Indonesia. 

Suspension of membership TFT Following "several breaches" by GAR of its policies and a slow transformation, The Forest Trust (TFT) decided to suspend GAR's membership in May 2015. The step is seen by many as a result of GAR's and PT Smart's lackluster handling of the RSPO complaint against them. In November 2015, TFT re-engaged with GAR.