Amorphous diatomite containing approx. 80% silicon dioxide SiO2 was used as a filler for a thermoplastic polymer of polyamide 11 obtained from natural sources. The diatomite particles of different sizes were previously fractionated by sedimentation to obtain powders with varying particle size distribution, including powders with or without frustule particles, crushed, uncrushed or agglomerated. Biocomposites containing 2.5, 5, 10 and 20% filler were tested for their mechanical properties, including tensile strength, flexural strength and impact strength. In addition, a particle size analysis (by Dynamic Light Scattering, DLS) was performed and the dispersion of the filler in the polymer matrix (Scanning Electron Microscopy, SEM), thermal parameters (Differential Scanning Calorimetry, DSC, and Dynamic Mechanical Analysis, DMA) were determined. Testing showed that biocomposites modified with diatomaceous earth have a higher mechanical strength than the reference system, especially with larger amounts of the filler (10 and 20%), e.g., the tensile strength of pure PA11 is about 46 MPa, while 20OB and 20OF 47.5 and 47 MPa, respectively, while an increase in max. flexural strength and flexural modulus is also observed compared to pure PA11 by a maximum of 63 and 54%, respectively Diatomaceous earth can be obtained in various ways—it is commercially available or it is possible to breed diatoms in laboratory conditions, while the use of commercially available diatomite, which contains diatoms of different sizes, eliminates the possibility of controlling mechanical parameters by filling biocomposites with a filler with the desired particle size distribution, and diatom breeding is not possible on an industrial scale. Our proposed biocomposite based on fractionated diatomaceous earth using a sedimentation process addresses the current need to produce biocomposite materials from natural sources, and moreover, the nature of the process, due to its simplicity, can be successfully used on an industrial scale.