The impact of logging on plant communities was studied in forest that has been logged selectively 1, 5 and 10 years previously (following a certified procedure): diversity was compared with that of primary rain forest in the Berau region of East Kalimantan, Indonesia. Four sets of 20 transects located within an area of 6 ha were sampled for all trees, saplings and seedlings, and records were made of topographic position, structure, composition and species diversity. There was a high level of floristic similarity between primary forests at the study sites compared to primary forest elsewhere in Kalimantan. The impact of logging is therefore likely to be the most important factor determining any differences between the plant communities of the selectively logged and primary forest sites. We found differences in species composition and abundance of most plants between selectively logged and primary forest. Overall, stem densities of trees in the primary forest were higher than in the three selectively logged forest sites. Stem densities of saplings were equivalent in all four forests. Seedling stem densities were higher in the forest site logged 10 years previously than in primary forest. Our results showed that the forests logged selectively under certified regimes still have a high plant diversity, possibly indicating that biodiversity values may be conserved by following certification procedures.