We conducted a retrospective analysis of national scientific and technological advances by technological design to manifest the demand for organisation processes remodelling towards the methods and approaches of the sixth design, especially in biotechnology. The article defines terms such as nursery, biologisation, promising technology and resource conservation. We analyse the fruit crop seedling production and structure of nursery-specific processes. We determine the main agrocenotic components most susceptible to chemical and technogenic impacts. Studies of soil fertility and biota prioritised the challenge of declined soil activity and biogenicity. We establish that an increased chemical pressure on fruit nursery agrocenoses leads to disturbances in benign microflora, microbiotic, acaro- and entomosystems, alters plant infection pathways and immune status. We report destructive manifestations of microbiotic, entomo- and acarosystems in agrocenoses via the emergence of new pathogenic fungal species, root rotting agents, vascular system necroses (tracheomycoses), resistant typically dominant pathogen strains, higher pathogenicity, the expansion of species list and ranges of bacterial communities, phytoplasmas, viruses and viroids, a more aggressive invasion of new pests, including stem pathogens, emerging hazardous adaptations in economically impactive phytophages. Furthermore, we consider the scientific and practical issues in fruit crop reproduction: sweeping off forms (genotypes) from selection, changes in infection pathways in candidate parental plants, reduced “plant — external environment” adaptation, impaired plant immunity under climatic and anthropogenic stress, selection of candidates with a higher production value under environmental stress burden, reduction of best-quality planting stock, seedling root system retardation, massive crown invasion with fungal and bacterial agents, inadequacy of trait databasing for promising varieties and genotyping techniques. The priority role of agrocenotic biologisation in sustainable fruit nursery is substantiated through adopting modern approaches, especially in biotechnology, based on molecular biology, biochemistry and genetic engineering.