Wetlands represent a small proportion of all habitats. Still, they are very important features within the landscape, particularly in the ecosystem mosaic. They are composed of many specifically adapted organisms. Wetlands spontaneously establish and provide a significant source of heterogeneity and diversity in an urban-industrial landscape. Most of Earth’s wetlands are at risk or have disappeared due to human activity. Apart from natural wetlands, unique anthropogenic wetlands are observed in southern Poland. The aim of study was to assess and analyze the water quality and the spontaneous wetland vegetation which has developed on anthropogenic wetland habitats. The study was conducted on the spontaneous wetland vegetation developed in habitats that emerged due to mineral excavation activities of quarries in the Silesia Upland and Krakow-Częstochowa Upland. The research subjects were wetlands that provide special water chemistry conditions for developing the peat bog vegetation. Water sampling and analyses, vegetation recording, and vegetation numerical analyses were conducted on studied wetlands. The results of a study conducted on flooded post-excavation sites revealed that diverse wetland spontaneous vegetation colonized such habitats. This research showed that anthropogenic wetlands can provide habitats for the development of outstanding biodiversity and form a refuge for calcareous plant species and the subsequently assembled rare peat bog vegetation. The high moisture and the increased presence of magnesium and calcium ions are developing in some sites of the post-mineral excavations. Such habitat conditions in anthropogenic wetlands enhance the occurrence of rare calciphilous species. Maintaining the relevant water conditions is crucial for the protection of these sites. The study presented that, quite frequently, the human-induced transformation results in establishing habitats that provide conditions for refuge organisms, mostly plants crucial for conservation perspective, particularly in the urban-industrial landscape. The additional importance of this study is related to the fact that the area of wetlands decreased. Therefore such anthropogenic wetlands should be integrated into urban planning and industrial site management to enhance biodiversity conservation.