Agroforestry systems (AFS) are used to improve food security, nutrition, and quality, reduction of climate change shocks, and boost incomes through timber and carbon markets. Publicly available data on the location of these AFSs is pivotal for machine learning algorithms that evaluate carbon markets, spatial sampling, and mapping. The data could be used for AFS optimization, species identification, and sequestration evaluation. The database contains over 20,000 land-use points and over 15,000 individual plants sampled from over 200 hectares across 35 out of 47 counties in Kenya. The data contains information on plant species identification, height, and diameter at breast height (DBH), with their photograph and location recorded.