•Biopsy sampling and modelling enabled us to express the difference in development stage of fruit.•The rate constants for colour and taste were similar between cultivars.•Sugars and organic acids follow a generic pattern modulated for each component and cultivar. Colour and taste are important attributes of apple fruit quality and have therefore been widely studied. Nevertheless, because of the destructive sampling methods commonly used to obtain the data, and of the subsequent traditional analyses, ignoring the effects of biological variation, the knowledge on the kinetic mechanisms of synthesis and degradation of individual quality components during fruit development and growth is still lacking. Spatio-temporal changes of taste components (sugars: fructose, sucrose, glucose, organic acids: malic, citric, shikimic and fumaric acid) and colour aspects (a*) in individual apple fruits were monitored to assess the dynamics and mechanisms of change during development and ripening with respect to location within fruit as a factor and the variation between individual apples. Data were analysed with non-linear indexed regression based on either a logistic or an exponential process oriented model assessing the technical variation simultaneously. The rate constants for colour or taste component were roughly similar between cultivars, suggesting a similar mechanism of development and confirming the generic nature of the model. There was a very large biological variation in individual quality components observed in the raw data (the biological variation), which can be almost exclusively explained by the difference in the maturity stage between individual fruit. The explained parts (R2adj) were, with one exception, higher than 0.90. The major contribution of this study is the fact that all the herein monitored taste defining components can be analysed and described with the same process-oriented model.