Abstract In order to investigate the influence of molecular structure peculiarities of boron-dipyrrine dyes (BODIPYs) on their properties in solutions and supramolecular organization in Langmuir-Schaefer (LS) films, four new BODIPY dyes with various aliphatic, aromatic or mixed nature meso-subtituents were synthesized and investigated. Spectral characteristics (electronic absorption and fluorescence) of the synthesized compounds in organic solvents and LS-films were studied. Floating monolayers of the BODIPYs were formed from chloroform solutions placed onto water subphase in Langmuir-Blodgett through. Thin films were prepared using the Langmuir-Schaefer technique by the transfer of floating monolayers onto standard polished glass, ITO covered glass or pure silicon substrate. The variation of the dye structure we consider as a preorganization aiming to influence the structure of LS-films. The morphology and structure of the LS-films was examined by fluorescent microscopy, scanning electron microscopy, atomic force microscopy and small angle X-ray diffraction analysis. It was found that the introduced substituents have no substantial influence on the position of the absorption and fluorescence bands in dilute solutions. In contrast, the fluorescent characteristics of the LS-films significantly depend on the substituent nature. Therefore, this strategy could be used for the direct tuning of compounds fluorescent properties in LS-films. Concerning the LS-film surface characteristics it was proved that the films are homogeneous, without disruptions and only some widely-spaced microcrystals could be observed. With respect to the LS-film structure, the change of the substituents introduced to the BODIPY molecule did not influence the average given periodicity of layers (d = 0.3–0.4 nm). This value corresponds to a single-layer arrangement of BODIPY molecules located parallel to the substrate surface. Nevertheless, the diffraction peak intensities depended on the molecular structure of BODIPYs and therefore the structurization in thin films. Moreover, the combination of the rigid phenyl moiety with long alkyl chains in one compound completely suppresses the aggregation of molecules maintaining the intense fluorescence in thin films. On the basis of used range of experimental and calculation methods the intralayer and interlayer structures were proposed. Intermolecular hydrogen bond formation and π-π staking of the BODIPY cores were found to be the structure forming forces during the films manufacturing, resulting the differences in crystallinity of the materials. While the alkyl-substituents prevent the type of interactions and suppress the association of the dyes and formation of excimers. Compounds under investigation show a manifestation of the intense solvatochromic properties which allow their application as sensors, including naked eye sensorics for solution polarity. Besides, the obtained results broaden prospective of functional materials usage based on BODIPY thin films as components of optoelectronics.