The Late Miocene palaeofloras of the La Cerdanya Basin represent a unique look into the Pyrenean Miocene forested areas of the Iberian Peninsula at a time when the European warm and humid climate was experiencing progressive cooling and aridification. Macrofossils (leaves, seeds, fruits and cones) and miospores from several outcrops revealed the composition and abundances of the different plant species present in the area during the Tortonian and early Messinian geological stages (ca. 11.1–5.7 Ma). These fossils were found in the sediment deposits of an ancient lake system situated in the southwestern part of the basin. Previous studies indicated the presence of highly diversified mixed mesophytic forests with broadleaved evergreen and deciduous trees and conifers. However, the spatial structure and distribution of these forest types remains unknown. In the present work, the biomization method was used to infer the different late Miocene vegetation types from the basin. The extent of these vegetation types was calculated using a methodology for mapping vegetation units from fossil and biome data. While previous attempts at mapping Miocene vegetation units had a broad geographical scale, the present work aimed to map the extent of the vegetation units at a small scale, recreating local and specific vegetation changes in an abrupt basin. Results showed similarly high scores between for four biome types, which represent the different types of vegetation that coexisted in the basin during the Tortonian and the early Messinian: warm-temperate evergreen broadleaf and mixed woodlands (WTEM biome), temperate deciduous forests (TEDE) and cool conifer forests (COMX and COEG). Their extent was depicted in two vegetation maps, which account for differences in palaeoaltitude and palaeoclimate. These forests occupied different vegetation belts, which shifted upwards and downwards with climatic variations and the progressive uplift of the Pyrenees during the late Miocene. Azonal riparian forests and wetland vegetation occupied the more humid areas in the centre of the basin. Nonetheless, dry conditions during the early Messinian and decrease in the lake area degraded the wetland environments, which were partially replaced by broadleaved evergreen mixed woodlands.